Package ListΒΆ

This is a list of things you can install using Spack. It is automatically generated based on the packages in this Spack version.

Spack currently has 6416 mainline packages:

3dtk open3d py-testinfra
3proxy openal-soft py-testpath
abacus openbabel py-testrepository
abduco openblas py-testresources
abi-compliance-checker opencarp py-testscenarios
abi-dumper opencascade py-testtools
abinit opencl-c-headers py-tetoolkit
abseil-cpp opencl-clhpp py-text-unidecode
abyss opencl-headers py-textblob
accfft opencoarrays py-texttable
acct opencv py-tfdlpack
accumulo opendatadetector py-theano
ace opendx py-thinc
ack openexr py-thirdorder
acl openfast py-threadpoolctl
acpica-tools openfdtd py-tifffile
acpid openfoam py-timm
activeharmony openfoam-org py-tinyarray
activemq openfst py-tokenize-rt
acts opengl py-tokenizers
addrwatch openglu py-toml
adept-utils openimageio py-tomli
adf openipmi py-tomli-w
adiak openjdk py-tomlkit
adios openjpeg py-tomopy
adios2 openkim-models py-toolz
adlbx openldap py-toposort
admixtools openlibm py-torch
adms openloops py-torch-cluster
adol-c openmc py-torch-geometric
advancecomp openmm py-torch-nvidia-apex
adwaita-icon-theme openmolcas py-torch-scatter
aegean openmpi py-torch-sparse
aeskeyfind openmx py-torch-spline-conv
aespipe opennurbs py-torchaudio
agile openpa py-torchfile
agrep openpbs py-torchgeo
aida openpmd-api py-torchmeta
akantu openrasmol py-torchmetrics
alan openresty py-torchsummary
albany openscenegraph py-torchtext
albert openslide py-torchvision
alembic openslp py-tornado
alglib openspeedshop py-tox
allpaths-lg openspeedshop-utils py-tpot
alluxio openssh py-tqdm
alpaka openssl py-traceback2
alpgen openstf py-traitlets
alps opensubdiv py-traits
alquimia opentsdb py-traitsui
alsa-lib openturns py-transformers
aluminum openvdb py-transforms3d
ambari openwsman py-treehash
amber opium py-triangle
amdblis optional-lite py-trojanzoo-sphinx-theme
amdfftw optipng py-tuiview
amdlibflame opus py-tweedledum
amdlibm or-tools py-twine
amdscalapack oracle-instant-client py-twisted
amg oras py-typed-ast
amg2013 orbit2 py-typeguard
amgx orc py-typesentry
aml orca py-typing
amp orfm py-typing-extensions
ampl orientdb py-tzlocal
ampliconnoise orthofiller py-ucsf-pyem
amr-wind orthofinder py-ucx-py
amrex orthomcl py-uhi
amrvis osi py-ujson
anaconda2 osmctools py-umalqurra
anaconda3 osqp py-umi-tools
andi ossp-uuid py-uncertainties
angsd osu-micro-benchmarks py-unicycler
ant otf py-unidecode
antimony otf2 py-unittest2
antlr ovito py-unittest2py3k
ants p11-kit py-unshare
aocc p3dfft3 py-update-checker
aocl-sparse p4est py-uproot
aoflagger p7zip py-uproot3
aom pacbio-daligner py-uproot3-methods
aomp pacbio-damasker py-uproot4
apachetop pacbio-dazz-db py-uritemplate
apcomp pacbio-dextractor py-urllib3
ape pacifica-cli py-urwid
aperture-photometry packmol py-us
apex pacparser py-usgs
apfel pacvim py-utils
apktool pagit py-uvloop
apple-libunwind pagmo py-uvw
apple-libuuid pagmo2 py-uwsgi
applewmproto pajeng py-vcf-kit
appres pal py-vcrpy
apptainer palisade-development py-vcstool
apr paml py-vcstools
apr-util panda py-vcversioner
aragorn pandaseq py-vector
arbor pandoc py-vector-quantize-pytorch
arborx pango py-vermin
archer pangolin py-versioneer
argobots pangomm py-vine
argon2 papi py-virtualenv
argp-standalone papyrus py-virtualenv-clone
args paradiseo py-virtualenvwrapper
argtable parallel py-visdom
aria2 parallel-netcdf py-voluptuous
arm parallelio py-vsc-base
arm-forge parallelmergetree py-vsc-install
armadillo paraver py-vsts
armpl paraview py-vsts-cd-manager
arpack-ng parflow py-walinuxagent
arrayfire parmetis py-wand
arrow parmgridgen py-wandb
asagi parmmg py-warlock
ascent parquet-cpp py-warpx
asciidoc parquet-format py-wasabi
asciidoc-py3 parsec py-watchdog
asdcplib parsimonator py-wcsaxes
asdf-cxx parsplice py-wcwidth
asio partitionfinder py-weave
aspa pasta py-webargs
aspcud pastix py-webencodings
aspect patch py-webkit-server
aspell patchelf py-weblogo
aspell6-de patchutils py-webob
aspell6-en pathfinder py-websocket-client
aspell6-es pax-utils py-websockets
aspera-cli pbbam py-werkzeug
assimp pbmpi py-wget
astra pbsuite py-whatshap
astral pciutils py-wheel
astyle pcl py-whichcraft
at-spi2-atk pcma py-whoosh
at-spi2-core pcre py-widgetsnbextension
atf pcre2 py-wincertstore
athena pdc py-word2number
atk pdf2svg py-wordcloud
atlas pdftk py-workload-automation
atmi pdsh py-wradlib
atom-dft pdt py-wrapt
atompaw pegtl py-wsproto
atop pennant py-wstool
attr percept py-wub
audacious percona-server py-wurlitzer
audacity perfstubs py-ww
audit-userspace perl py-wxmplot
augustus perl-acme-damn py-wxpython
authd perl-algorithm-diff py-x21
authselect perl-alien-build py-xarray
autoconf perl-alien-libxml2 py-xattr
autoconf-archive perl-alien-svn py-xdot
autodiff perl-app-cmd py-xenv
autodock-gpu perl-array-utils py-xgboost
autodock-vina perl-b-hooks-endofscope py-xlrd
autofact perl-bio-searchio-hmmer py-xlsxwriter
autogen perl-bioperl py-xlwt
automaded perl-bit-vector py-xmlrunner
automake perl-cairo py-xmltodict
avizo perl-capture-tiny py-xonsh
aws-parallelcluster perl-carp-clan py-xopen
awscli perl-cgi py-xpyb
axel perl-class-data-inheritable py-xrootdpyfs
axl perl-class-inspector py-xvfbwrapper
axom perl-class-load py-xxhash
babelflow perl-class-load-xs py-yacs
babeltrace perl-clone py-yahmm
bacio perl-clone-choose py-yajl
backupninja perl-compress-raw-bzip2 py-yamlreader
bam-readcount perl-compress-raw-zlib py-yapf
bamaddrg perl-config-general py-yarl
bamdst perl-contextual-return py-yaspin
bamtools perl-cpan-meta-check py-yolk3k
bamutil perl-data-dumper py-youtube-dl
banner perl-data-optlist py-yq
bannergrab perl-data-stag py-yt
barrnap perl-date-manip py-ytopt
bart perl-db-file py-ytopt-autotune
barvinok perl-dbd-mysql py-zarr
bash perl-dbd-pg py-zc-buildout
bash-completion perl-dbd-sqlite py-zc-lockfile
bashtop perl-dbi py-zict
bat perl-devel-cycle py-zipfile-deflate64
batchedblas perl-devel-globaldestruction py-zipp
batctl perl-devel-overloadinfo py-zope-event
bats perl-devel-stacktrace py-zope-interface
baurmc perl-devel-symdump py-zxcvbn
bazel perl-digest-md5 pygmo
bbcp perl-dist-checkconflicts pythia6
bbmap perl-encode-locale pythia8
bc perl-error python
bcache perl-eval-closure q-e-sirius
bcftools perl-exception-class qbank
bcl2fastq2 perl-exporter-lite qbox
bdftopcf perl-exporter-tiny qca
bdii perl-extutils-config qcachegrind
bdw-gc perl-extutils-depends qd
beagle perl-extutils-helpers qemu
beakerlib perl-extutils-installpaths qgis
bear perl-extutils-makemaker qgraf
beast-tracer perl-extutils-pkgconfig qhull
beast1 perl-ffi-checklib qjson
beast2 perl-file-chdir qmcpack
bedops perl-file-copy-recursive qmd-progress
bedtools2 perl-file-homedir qnnpack
beforelight perl-file-listing qorts
benchmark perl-file-pushd qperf
berkeley-db perl-file-sharedir-install qrupdate
berkeleygw perl-file-slurp qscintilla
bertini perl-file-slurp-tiny qt
bgpdump perl-file-slurper qt-creator
bib2xhtml perl-file-which qtgraph
bigdft-atlab perl-font-ttf qthreads
bigdft-chess perl-forks qtkeychain
bigdft-core perl-fth qualimap
bigdft-futile perl-gd quantum-espresso
bigdft-libabinit perl-gdgraph quartz
bigdft-psolver perl-gdgraph-histogram qucs
bigdft-spred perl-gdtextutil quicksilver
bigdft-suite perl-getopt-tabular quinoa
bigreqsproto perl-graph quota
bind9 perl-graph-readwrite qwt
binutils perl-hash-merge qwtpolar
bioawk perl-html-parser r
biobambam2 perl-html-tagset r-a4
biobloom perl-http-cookies r-a4base
biopieces perl-http-daemon r-a4classif
bird perl-http-date r-a4core
bismark perl-http-message r-a4preproc
bison perl-http-negotiate r-a4reporting
bitlbee perl-inline r-abadata
bitmap perl-inline-c r-abaenrichment
bitsery perl-io-all r-abind
blackhat perl-io-compress r-absseq
blaspp perl-io-html r-acde
blasr perl-io-prompt r-acepack
blasr-libcpp perl-io-sessiondata r-acgh
blast-legacy perl-io-socket-ssl r-acme
blast-plus perl-io-string r-ada
blast2go perl-io-stringy r-adabag
blat perl-io-tty r-ade4
blaze perl-ipc-run r-adegenet
blis perl-json r-adegraphics
bliss perl-libwww-perl r-adephylo
blitz perl-libxml-perl r-adespatial
blktrace perl-list-moreutils r-adgoftest
bloaty perl-list-moreutils-xs r-adsplit
blogbench perl-log-log4perl r-aer
blt perl-logger-simple r-afex
bmake perl-lwp-mediatypes r-affxparser
bmi perl-lwp-protocol-https r-affy
bml perl-mailtools r-affycomp
bohrium perl-math-bezier r-affycompatible
boinc-client perl-math-cdf r-affycontam
bolt perl-math-cephes r-affycoretools
bonniepp perl-math-matrixreal r-affydata
bookleaf-cpp perl-math-round r-affyexpress
boost perl-math-vecstat r-affyilm
boostmplcartesianproduct perl-mce r-affyio
botan perl-mni-perllib r-affypdnn
bowtie perl-module-build r-affyplm
bowtie2 perl-module-build-tiny r-affyqcreport
boxlib perl-module-implementation r-affyrnadegradation
bpp-core perl-module-runtime r-agdex
bpp-phyl perl-module-runtime-conflicts r-agilp
bpp-phyl-omics perl-moose r-agimicrorna
bpp-popgen perl-mozilla-ca r-aims
bpp-seq perl-mro-compat r-aldex2
bpp-seq-omics perl-namespace-clean r-allelicimbalance
bpp-suite perl-net-http r-alpine
bracken perl-net-scp-expect r-als
braker perl-net-ssleay r-alsace
branson perl-number-format r-altcdfenvs
breakdancer perl-object-insideout r-amap
bref3 perl-package-deprecationmanager r-amelia
breseq perl-package-stash r-ampliqueso
bridger perl-package-stash-xs r-analysispageserver
brigand perl-padwalker r-anaquin
brltty perl-parallel-forkmanager r-aneufinder
brotli perl-params-util r-aneufinderdata
brpc perl-params-validate r-animation
brynet perl-parse-recdescent r-annaffy
bsseeker2 perl-path-tiny r-annotate
bubblewrap perl-pdf-api2 r-annotationdbi
bucky perl-pegex r-annotationfilter
buddy perl-perl-unsafe-signals r-annotationforge
bufr perl-perl-version r-annotationhub
bumpversion perl-perl4-corelibs r-anytime
busco perl-perl6-slurp r-aod
busybox perl-perlio-gzip r-ape
butter perl-perlio-utf8-strict r-aplot
butterflypack perl-readonly r-argparse
bwa perl-regexp-common r-aroma-light
bwtool perl-scalar-list-utils r-ash
byacc perl-scalar-util-numeric r-askpass
byobu perl-set-intervaltree r-assertive
byte-unixbench perl-set-intspan r-assertive-base
byteman perl-set-scalar r-assertive-code
bzip2 perl-soap-lite r-assertive-data
c perl-star-fusion r-assertive-data-uk
c-ares perl-statistics-basic r-assertive-data-us
c-blosc perl-statistics-descriptive r-assertive-datetimes
c-blosc2 perl-statistics-pca r-assertive-files
c-lime perl-sub-exporter r-assertive-matrices
c3d perl-sub-exporter-progressive r-assertive-models
ca-certificates-mozilla perl-sub-identify r-assertive-numbers
cabana perl-sub-install r-assertive-properties
cachefilesd perl-sub-name r-assertive-reflection
caffe perl-sub-uplevel r-assertive-sets
cairo perl-svg r-assertive-strings
cairomm perl-swissknife r-assertive-types
caliper perl-sys-sigaction r-assertthat
callflow perl-task-weaken r-backports
callpath perl-term-readline-gnu r-bamsignals
camellia perl-termreadkey r-base64
camp perl-test-cleannamespaces r-base64enc
camx perl-test-deep r-bayesm
canal perl-test-differences r-bayesplot
candle-benchmarks perl-test-exception r-bbmisc
cans perl-test-fatal r-beachmat
cantera perl-test-memory-cycle r-beanplot
canu perl-test-more r-beeswarm
cap3 perl-test-most r-bfast
capnproto perl-test-needs r-bfastspatial
capstone perl-test-output r-bglr
cardioid perl-test-requires r-bh
care perl-test-requiresinternet r-biasedurn
casacore perl-test-warn r-bibtex
cask perl-test-warnings r-bigalgebra
casper perl-text-csv r-bigmemory
cassandra perl-text-diff r-bigmemory-sri
catalyst perl-text-format r-bindr
catch2 perl-text-simpletable r-bindrcpp
cbc perl-text-soundex r-bio3d
cbench perl-text-unidecode r-biobase
cbflib perl-thread-queue r-biocfilecache
cblas perl-threads r-biocgenerics
cbtf perl-time-hires r-biocinstaller
cbtf-argonavis perl-time-piece r-biocio
cbtf-argonavis-gui perl-timedate r-biocmanager
cbtf-krell perl-tk r-biocneighbors
cbtf-lanl perl-try-tiny r-biocparallel
cc65 perl-uri r-biocsingular
ccache perl-uri-encode r-biocstyle
ccfits perl-want r-biocversion
ccls perl-www-robotrules r-biom-utils
ccs-qcd perl-xml-dom r-biomart
cctools perl-xml-dom-xpath r-biomartr
cdbfasta perl-xml-filter-buffertext r-biomformat
cdd perl-xml-libxml r-biostrings
cddlib perl-xml-libxslt r-biovizbase
cdecimal perl-xml-namespacesupport r-bit
cdhit perl-xml-parser r-bit64
cdo perl-xml-parser-lite r-bitops
ceed perl-xml-quote r-blavaan
cereal perl-xml-regexp r-blob
ceres-solver perl-xml-sax r-blockmodeling
cfitsio perl-xml-sax-base r-bmp
cgal perl-xml-sax-writer r-bookdown
cgdb perl-xml-simple r-boot
cgdcbxd perl-xml-twig r-boruta
cget perl-xml-writer r-brew
cgl perl-xml-xpathengine r-bridgesampling
cgm perl-yaml r-brio
cgns perl-yaml-libyaml r-brms
chaco pestpp r-brobdingnag
chai petaca r-broom
chameleon petsc r-bsgenome
changa pexsi r-bsgenome-hsapiens-ucsc-hg19
channelflow pfapack r-bslib
chaparral pfft r-bsseq
chapel pflask r-bumphunter
chaplin pflotran r-bwstest
charliecloud pfunit r-c50
charmpp pgdspider r-ca
chatterbug pgi r-cachem
check pgplot r-cairo
chgcentre phantompeakqualtools r-callr
chill phast r-car
chlorop phasta r-caracas
chombo phist r-cardata
chrony phoenix r-caret
chrpath photos r-caretensemble
cinch photos-f r-caroline
circos php r-category
cistem phrap-crossmatch-swat r-catools
citcoms phred r-cca
cityhash phylip r-ccp
cjson phylobayesmpi r-cdcfluview
ck phyluce r-cellranger
clamav picard r-champ
clamr picsar r-champdata
clapack picsarlite r-checkmate
clara pidx r-checkpoint
claw pig r-chemometrics
clblast pigz r-chipseq
cleaveland4 pika r-chron
cleverleaf pilon r-circlize
clfft pindel r-circstats
clhep pinentry r-class
cli11 pinfo r-classint
clinfo pipework r-cli
clingo piranha r-clipr
clingo-bootstrap pism r-clisymbols
cln pixman r-clue
cloc pixz r-cluster
cloog pkg-config r-clustergeneration
cloverleaf pkgconf r-clusterprofiler
cloverleaf3d pktools r-cner
clp planck-likelihood r-coda
clustal-omega plasma r-codetools
clustalw platypus r-codex
cmake plink r-coin
cmaq plink-ng r-colorspace
cmark plplot r-colourpicker
cminpack plumed r-combinat
cmocka ply r-commonmark
cmockery pmdk r-complexheatmap
cmor pmemkv r-compositions
cni-plugins pmerge r-compquadform
cnmem pmgr-collective r-condop
cnpy pmix r-conquer
cntk pmlib r-construct
cntk1bitsgd pnfft r-convevol
cnvnator pngquant r-copula
codar-cheetah pngwriter r-corhmm
code-server pnmpi r-corpcor
codec2 poamsa r-corrplot
codes pocl r-countrycode
coevp podio r-covr
cohmm podman r-cowplot
coin3d poke r-cpp11
coinhsl polymake r-crayon
coinutils poplddecay r-credentials
collectd poppler r-crosstalk
collier poppler-data r-crul
colm popt r-ctc
colordiff porta r-cubature
comd portage r-cubist
comgr portcullis r-curl
commons-lang ports-of-call r-dada2
commons-lang3 postgis r-data-table
commons-logging postgresql r-dbi
compadre povray r-dbplyr
compiz powerapi r-debugme
compose powertop r-decipher
compositeproto ppl r-delayedarray
conda4aarch64 pplacer r-delayedmatrixstats
conduit ppopen-appl-amr-fdm r-deldir
conmon ppopen-appl-bem r-dendextend
connect-proxy ppopen-appl-bem-at r-deoptim
conserver ppopen-appl-dem-util r-deoptimr
console-bridge ppopen-appl-fdm r-deriv
constype ppopen-appl-fdm-at r-desc
consul ppopen-appl-fem r-deseq
converge ppopen-appl-fvm r-deseq2
cool ppopen-at r-desolve
coral ppopen-math-mp r-devtools
corenlp ppopen-math-vis r-dexseq
coreutils prank r-diagrammer
corset precice r-dicekriging
cosbench predixy r-dichromat
cosign premake-core r-diffobj
cosma presentproto r-diffusionmap
cosmoflow-benchmark preseq r-digest
cosmomc presto r-diptest
cosp2 price r-dirichletmultinomial
costa primer3 r-dismo
cotter prinseq-lite r-distributional
couchdb printproto r-diversitree
cowsay prism r-dmrcate
cp2k prmon r-dnacopy
cpio prng r-do-db
cpmd probconsrna r-domc
cpp-argparse procenv r-doparallel
cpp-httplib process-in-process r-dorng
cpp-termcolor procps r-dose
cppad procps-ng r-dosnow
cppcheck prod-util r-dotcall64
cppcoro prodigal r-downloader
cppgsl professor r-dplyr
cpprestsdk profugusmc r-dqrng
cppunit proj r-dss
cppzmq prokka r-dt
cpu-features prometheus r-dtplyr
cpuinfo prophecy4f r-dtw
cqrlib protobuf r-dygraphs
cquery protobuf-c r-dynamictreecut
cracklib proxymngr r-e1071
cradl prrte r-earth
cram pruners-ninja r-ecp
cray-fftw ps-lite r-edger
cray-libsci psi4 r-effects
cray-mpich psimd r-elemstatlearn
cray-mvapich2 pslib r-ellipse
cray-pmi psm r-ellipsis
creduce psmc r-emmeans
crmc pstreams r-emmli
cromwell pthreadpool r-energy
cromwell-womtool pugixml r-enrichplot
cronie pulseaudio r-ensembldb
crtm pumi r-envstats
cryptopp pv r-ergm
cryptsetup pvm r-estimability
csa-c pxz r-europepmc
cscope py-3to2 r-evaluate
csdp py-4suite-xml r-evd
ctffind py-abcpy r-exactextractr
ctpl py-abipy r-exomecopy
ctre py-absl-py r-exomedepth
cub py-accimage r-experimenthub
cube py-acme-tiny r-expint
cube-blade py-adal r-expm
cubelib py-adb-enhanced r-factoextra
cubew py-addict r-factominer
cubist py-adios r-fansi
cuda py-advancedhtmlparser r-farver
cuda-memtest py-aenum r-fastcluster
cudnn py-affine r-fastdigest
cufflinks py-agate r-fastica
cunit py-agate-dbf r-fastmap
cupla py-agate-excel r-fastmatch
cups py-agate-sql r-fastmatrix
curl py-aiobotocore r-fda
cusz py-aiodns r-fdb-infiniummethylation-hg18
cutlang py-aiofiles r-fdb-infiniummethylation-hg19
cvector py-aiohttp r-fds
cvs py-aiohttp-cors r-ff
cxx py-aioitertools r-fftwtools
cxxopts py-aioredis r-fgsea
cxxtest py-aiosignal r-fields
cyrus-sasl py-aiosqlite r-filehash
czmq py-alabaster r-filelock
dakota py-alembic r-findpython
daligner py-altgraph r-fit-models
dalton py-amqp r-fitdistrplus
damageproto py-angel r-flashclust
damaris py-aniso8601 r-flexclust
damask py-annexremote r-flexmix
damask-grid py-ansi2html r-fnn
damask-mesh py-ansible r-fontawesome
damselfly py-antlr4-python3-runtime r-forcats
darshan-runtime py-anuga r-foreach
darshan-util py-anyio r-forecast
dash py-anytree r-foreign
datamash py-apache-beam r-formatr
dataspaces py-apache-libcloud r-formula
datatransferkit py-apex r-fpc
date py-apipkg r-fpcompare
dateutils py-appdirs r-fracdiff
davix py-applicationinsights r-fs
dbcsr py-appnope r-futile-logger
dbow2 py-apptools r-futile-options
dbus py-apscheduler r-future
dbus-glib py-arcgis r-future-apply
dbxtool py-archspec r-gamlss
dcap py-argcomplete r-gamlss-data
dcm2niix py-argh r-gamlss-dist
dcmtk py-argon2-cffi r-gamm4
dd4hep py-argon2-cffi-bindings r-gargle
ddd py-argparse r-gbm
dealii py-args r-gbrd
dealii-parameter-gui py-arrow r-gcrma
debbuild py-arviz r-gdalutilities
debugedit py-asciitree r-gdalutils
decentralized-internet py-asdf r-gdata
deconseq-standalone py-ase r-gdsfmt
dejagnu py-asgiref r-geiger
delly2 py-asn1crypto r-genefilter
delphes py-aspy-yaml r-genelendatabase
delta py-asserts r-genemeta
denovogear py-asteval r-geneplotter
dftbplus py-astor r-generics
dftd3-lib py-astpretty r-genetics
dftd4 py-astroid r-genie3
dftfe py-astropy r-genomeinfodb
dhpmm-f py-astropy-healpix r-genomeinfodbdata
dhtest py-astropy-helpers r-genomicalignments
dia py-asttokens r-genomicfeatures
dialign py-astunparse r-genomicranges
dialign-tx py-async-generator r-gensa
diamond py-async-lru r-geojsonsf
dicom3tools py-async-timeout r-geometries
diffmark py-asyncio r-geomorph
diffsplice py-asynctest r-geonames
diffutils py-atomicwrites r-geoquery
dihydrogen py-atpublic r-geor
dimemas py-atropos r-geosphere
ding-libs py-ats r-gert
dire py-attrs r-getopt
direnv py-audioread r-getoptlong
discovar py-autograd r-ggally
discovardenovo py-autograd-gamma r-ggbeeswarm
disktype py-automat r-ggbio
dislin py-autopep8 r-ggdendro
distcc py-auxlib r-ggforce
diy py-avro r-ggfun
dlib py-avro-json-serializer r-ggjoy
dlpack py-avro-python3 r-ggmap
dmd py-awesome-slugify r-ggplot2
dmidecode py-awkward r-ggplotify
dmlc-core py-awkward0 r-ggpubr
dmtcp py-awkward1 r-ggraph
dmxproto py-azote r-ggrepel
dnsmap py-azure-batch r-ggridges
dnsmasq py-azure-cli r-ggsci
dnstop py-azure-cli-command-modules-nspkg r-ggsignif
dnstracer py-azure-cli-core r-ggthemes
docbook-xml py-azure-cli-nspkg r-ggtree
docbook-xsl py-azure-cli-telemetry r-ggvis
dock py-azure-common r-gh
dos2unix py-azure-core r-gistr
dosfstools py-azure-cosmos r-git2r
dotconf py-azure-datalake-store r-gitcreds
dotnet-core-sdk py-azure-functions-devops-build r-glimma
double-conversion py-azure-graphrbac r-glmnet
doxygen py-azure-identity r-globaloptions
dpcpp py-azure-keyvault r-globals
dpdk py-azure-keyvault-certificates r-globaltest
draco py-azure-keyvault-keys r-glue
dracut py-azure-keyvault-nspkg r-gmodels
dramsim2 py-azure-keyvault-secrets r-gmp
dramsim3 py-azure-loganalytics r-go-db
dray py-azure-mgmt-advisor r-goftest
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dri3proto py-azure-mgmt-appconfiguration r-googledrive
drill py-azure-mgmt-applicationinsights r-googlesheets4
dropwatch py-azure-mgmt-authorization r-googlevis
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ds py-azure-mgmt-batchai r-gosemsim
dsdp py-azure-mgmt-billing r-goseq
dsfmt py-azure-mgmt-botservice r-gostats
dsqss py-azure-mgmt-cdn r-gower
dsrc py-azure-mgmt-cognitiveservices r-gparotation
dssp py-azure-mgmt-compute r-gplots
dtc py-azure-mgmt-consumption r-graph
dtcmp py-azure-mgmt-containerinstance r-graphlayouts
dtf py-azure-mgmt-containerregistry r-grbase
duperemove py-azure-mgmt-containerservice r-gridbase
dust py-azure-mgmt-core r-gridextra
dwz py-azure-mgmt-cosmosdb r-gridgraphics
dyninst py-azure-mgmt-datalake-analytics r-gsa
dysco py-azure-mgmt-datalake-store r-gsalib
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ea-utils py-azure-mgmt-deploymentmanager r-gsl
eagle py-azure-mgmt-devtestlabs r-gsodr
earlyoom py-azure-mgmt-dns r-gss
easi py-azure-mgmt-eventgrid r-gstat
easybuild py-azure-mgmt-eventhub r-gsubfn
ebms py-azure-mgmt-hdinsight r-gtable
ecbuild py-azure-mgmt-imagebuilder r-gtools
eccodes py-azure-mgmt-iotcentral r-gtrellis
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ecflow py-azure-mgmt-iothubprovisioningservices r-gwmodel
eckit py-azure-mgmt-keyvault r-hardhat
eclipse-gcj-parser py-azure-mgmt-kusto r-haven
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ecoslim py-azure-mgmt-managedservices r-hdf5r
ecp-data-vis-sdk py-azure-mgmt-managementgroups r-hdrcde
ecp-proxy-apps py-azure-mgmt-maps r-here
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editline py-azure-mgmt-media r-hh
editres py-azure-mgmt-monitor r-highr
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eem py-azure-mgmt-netapp r-hms
efivar py-azure-mgmt-network r-hoardr
eigen py-azure-mgmt-nspkg r-htmltable
eigenexa py-azure-mgmt-policyinsights r-htmltools
elasticsearch py-azure-mgmt-privatedns r-htmlwidgets
elemental py-azure-mgmt-rdbms r-httpcode
elfio py-azure-mgmt-recoveryservices r-httpuv
elfutils py-azure-mgmt-recoveryservicesbackup r-httr
elk py-azure-mgmt-redhatopenshift r-hwriter
elmerfem py-azure-mgmt-redis r-hypergraph
elpa py-azure-mgmt-relay r-ica
elsd py-azure-mgmt-reservations r-ids
elsdc py-azure-mgmt-resource r-igraph
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emboss py-azure-mgmt-servicefabric r-illuminahumanmethylationepicanno-ilm10b4-hg19
embree py-azure-mgmt-signalr r-illuminahumanmethylationepicmanifest
enca py-azure-mgmt-sql r-illuminaio
enchant py-azure-mgmt-sqlvirtualmachine r-imager
energyplus py-azure-mgmt-storage r-impute
entrezdirect py-azure-mgmt-trafficmanager r-influencer
entt py-azure-mgmt-web r-ini
environment-modules py-azure-multiapi-storage r-inline
enzo py-azure-nspkg r-insight
enzyme py-azure-storage-blob r-interactivedisplaybase
eospac py-azure-storage-common r-intervals
eq-r py-azure-storage-nspkg r-inum
er py-azureml-automl-core r-ipred
erfa py-azureml-core r-iranges
erlang py-azureml-dataprep r-irdisplay
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erne py-azureml-dataprep-rslex r-irlba
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esmf py-azureml-pipeline r-islr
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essl py-azureml-pipeline-steps r-isoband
esys-particle py-azureml-sdk r-isva
etcd py-azureml-telemetry r-iterators
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etsf-io py-azureml-train-core r-jaspar2018
eve py-azureml-train-restclients-hyperdrive r-jomo
evemu py-babel r-jpeg
everytrace py-backcall r-jquerylib
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evieext py-backports-entry-points-selectable r-jsonlite
evtgen py-backports-functools-lru-cache r-kegg-db
exa py-backports-lzma r-kegggraph
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exago py-backports-shutil-get-terminal-size r-kernlab
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exodusii py-bcolz r-laplacesdemon
exonerate py-bcrypt r-lars
exonerate-gff3 py-beancount r-later
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expect py-beniget r-latticeextra
express py-bids-validator r-lava
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eztrace py-billiard r-ldheatmap
f2c py-binaryornot r-leafem
f3d py-bintrees r-leaflet
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f90cache py-biom-format r-leafpop
fabtests py-biomine r-leaps
fairlogger py-biopandas r-learnbayes
faiss py-biopython r-leiden
fakechroot py-bitarray r-lfe
fakexrandr py-bitstring r-lhs
falcon py-black r-libcoin
fann py-bleach r-lifecycle
faodel py-blessed r-limma
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fastmath py-boost-histogram r-loo
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fastp py-boto3 r-lpsolveapi
fastphase py-botocore r-lsei
fastq-screen py-bottle r-lubridate
fastqc py-bottleneck r-lumi
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fasttransforms py-brian r-magick
fasttree py-brian2 r-magrittr
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faust py-bsddb3 r-maldiquant
fbgemm py-build r-manipulatewidget
fca py-bx-python r-mapplots
fcgi py-bz2file r-mapproj
fd-find py-cachecontrol r-maps
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fenics-ufcx py-cartopy r-matlab
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ferret py-cdo r-matrixstats
ffb py-cdsapi r-mclust
ffmpeg py-cekit r-mcmc
ffr py-celery r-mcmcglmm
ffsb py-cerberus r-mcmcpack
ffte py-certifi r-mco
fftw py-certipy r-mda
fftx py-cf-units r-memoise
fgsl py-cffconvert r-memuse
fides py-cffi r-mergemaid
figlet py-cfgrib r-metap
figtree py-cfgv r-methylumi
file py-cftime r-mgcv
filebench py-chai r-mgraster
filo py-chainer r-mice
filtlong py-chainmap r-microbenchmark
fimpute py-chalice r-mime
find-circ py-chardet r-minfi
findbugs py-charm4py r-miniui
findutils py-charset-normalizer r-minqa
fio py-checkm-genome r-misc3d
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fish py-cheetah3 r-mitml
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fj py-cherrypy r-mixtools
fjcontrib py-chronyk r-mlbench
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flac py-ci-sdr r-mlr
flann py-cinema-lib r-mlrmbo
flap py-cinemasci r-mmwrweek
flash py-citeproc-py r-mnormt
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fltk py-cmocean r-mzid
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folly py-colored r-nfactors
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form py-colormath r-nmof
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fortran py-colorspacious r-nnls
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foundationdb py-configobj r-nortest
fox py-configparser r-np
fp16 py-configspace r-npsurv
fpc py-connectionpool r-numderiv
fpchecker py-constantly r-oligoclasses
fping py-contextily r-openssl
fplll py-contextlib2 r-openxlsx
fpm py-contextvars r-optimx
fpocket py-control r-optparse
fqtrim py-convertdate r-ordinal
fr-hit py-convokit r-org-hs-eg-db
fraggenescan py-cookiecutter r-organismdbi
freebayes py-cookies r-packrat
freefem py-copulas r-pacman
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freeimage py-counter r-pamr
freeipmi py-cov-core r-pan
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fribidi py-cppheaderparser r-paramhelpers
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ftgl py-cssselect r-pbkrtest
ftjam py-csvkit r-pcamethods
ftk py-ctgan r-pcapp
ftobjectlibrary py-cudf r-pegas
ftxui py-cuml r-permute
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fujitsu-ssl2 py-cvxopt r-pheatmap
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g2 py-cyvcf2 r-pinfsc50
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g2o py-dadi r-pkgbuild
g2tmpl py-damask r-pkgcache
g4abla py-dask r-pkgconfig
g4emlow py-dask-glm r-pkgdepends
g4ensdfstate py-dask-ml r-pkgload
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g4ndl py-dataclasses r-plogr
g4neutronxs py-datacube r-plot3d
g4particlexs py-datalad r-plotly
g4photonevaporation py-datalad-container r-plotmo
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g4radioactivedecay py-datalad-metalad r-pls
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ganglia py-dbf r-polyclip
gapbs py-dbfread r-polynom
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gapfiller py-debtcollector r-poorman
garfieldpp py-debugpy r-popgenome
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gawk py-descartes r-processx
gbl py-devlib r-prodlim
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gcc py-dh-scikit-optimize r-progressr
gccmakedep py-dictdiffer r-proj
gccxml py-dill r-proj4
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gconf py-discover r-promises
gcta py-diskcache r-protgenerics
gdal py-distance r-proto
gdb py-distlib r-proxy
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gdl py-django r-pscbs
gdrcopy py-dlcpar r-pspline
geant4 py-dm-tree r-psych
geant4-data py-dnaio r-ptw
geant4-vmc py-docker r-purrr
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gemmlowp py-docopt r-qs
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genesis py-docutils-stubs r-quadprog
genfit py-dominate r-quantmod
gengeo py-dotnetcore2 r-quantreg
gengetopt py-downhill r-quantro
genie py-doxypy r-questionr
genomefinisher py-doxypypy r-quickplot
genometools py-dp-gp-cluster r-qvalue
genomeworks py-dpath r-r-cache
genrich py-drmaa r-r-methodss3
geode py-dryscrape r-r-oo
geoip py-duecredit r-r-utils
geoip-api-c py-dulwich r-r6
geopm py-dvc r-rainbow
geos py-dxchange r-randomfields
gettext py-dxfile r-randomfieldsutils
gflags py-earthengine-api r-randomforest
gfsio py-easybuild-easyblocks r-randomglm
gh py-easybuild-easyconfigs r-ranger
ghost py-easybuild-framework r-rann
ghostscript py-eccodes r-rapidjsonr
ghostscript-fonts py-ecdsa r-rapiserialize
giblib py-ecos r-rappdirs
giflib py-edffile r-raster
ginac py-editdistance r-rbgl
ginkgo py-efficientnet-pytorch r-rbibutils
giraph py-eg r-rbokeh
git py-einops r-rcmdcheck
git-annex py-elasticsearch r-rcolorbrewer
git-fat-git py-elephant r-rcpp
git-imerge py-emcee r-rcppannoy
git-lfs py-emoji r-rcpparmadillo
gitconddb py-empy r-rcppblaze
gl2ps py-entrypoints r-rcppcctz
glew py-enum34 r-rcppcnpy
glfmultiples py-envisage r-rcppdate
glfw py-ephem r-rcppde
glib py-epydoc r-rcppeigen
glib-networking py-espresso r-rcppgsl
glibmm py-espressopp r-rcpphnsw
glimmer py-et-xmlfile r-rcppparallel
glm py-etelemetry r-rcppprogress
global py-eventlet r-rcpptoml
globalarrays py-execnet r-rcppziggurat
glog py-executing r-rcurl
gloo py-exifread r-rda
glpk py-exodus-bundler r-rdpack
glproto py-extension-helpers r-readbitmap
gluegen py-extras r-readr
glusterfs py-ez-setup r-readxl
glvis py-f90wrap r-reams
gmake py-fabric r-recipes
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gmime py-falcon r-rematch
gmodel py-fallocate r-rematch2
gmp py-fastai r-remotes
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gmtsar py-fastcache r-reportingtools
gnat py-fastcluster r-repr
gnds py-fastcore r-reprex
gnome-common py-fastcov r-reproducible
gnuconfig py-fastdownload r-require
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gnuplot py-fasteners r-reshape2
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go py-fastrlock r-rex
go-bootstrap py-faststructure r-rfast
go-md2man py-fava r-rferns
gobject-introspection py-fenics-basix r-rgdal
goblin-hmc-sim py-fenics-dijitso r-rgenoud
goma py-fenics-dolfinx r-rgeos
google-crc32c py-fenics-ffc r-rgexf
googletest py-fenics-ffcx r-rgl
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goshimmer py-fenics-instant r-rgraphviz
gotcha py-fenics-ufl r-rhdf5
gource py-filelock r-rhdf5filters
gpdb py-filemagic r-rhdf5lib
gperf py-filterpy r-rhmmer
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gpi-2 py-fire r-rio
gpi-space py-fiscalyear r-rjags
gplates py-fisher r-rjava
gprolog py-fits-tools r-rjson
gptl py-fixtures r-rjsonio
gptune py-flake8 r-rlang
gpu-burn py-flake8-import-order r-rle
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gr-osmosdr py-flameprof r-rmarkdown
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grace py-flask-babel r-rmpfr
grackle py-flask-compress r-rmpi
gradle py-flask-cors r-rms
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grafana py-flask-socketio r-rmysql
grandr py-flatbuffers r-rnaseqmap
graph500 py-flatten-dict r-rncl
graphblast py-flawfinder r-rnexml
graphicsmagick py-flexmock r-rngtools
graphite2 py-flexx r-rnoaa
graphlib py-flit r-robust
graphmap py-flit-core r-robustbase
graphviz py-flufl-lock r-roc
grass py-flye r-rocr
graylog2-server py-fn-py r-rodbc
grep py-fonttools r-rook
grib-api py-formatizer r-rots
grib-util py-formulaic r-roxygen2
gridlab-d py-fortran-language-server r-rpart
grnboost py-fortranformat r-rpart-plot
groff py-fparser r-rpmm
gromacs py-fprettify r-rpostgres
gromacs-chain-coordinate py-fracridge r-rpostgresql
gromacs-swaxs py-freezegun r-rprojroot
grpc py-frozenlist r-rpsychi
gsettings-desktop-schemas py-fs r-rrblup
gsl py-fsspec r-rrcov
gslib py-ftfy r-rrpp
gtk-doc py-funcsigs r-rsamtools
gtkmm py-functools32 r-rsconnect
gtkorvo-atl py-funcy r-rsnns
gtkorvo-cercs-env py-fury r-rsolnp
gtkorvo-dill py-fusepy r-rspectra
gtkorvo-enet py-future r-rsqlite
gtkplus py-futures r-rstan
gtksourceview py-fuzzywuzzy r-rstantools
gts py-fypp r-rstatix
guacamole-client py-gast r-rstudioapi
guacamole-server py-gcovr r-rsvd
guidance py-gcs-oauth2-boto-plugin r-rtracklayer
guile py-gdbgui r-rtsne
gunrock py-gdc-client r-runit
gurobi py-gee-asset-manager r-runjags
gxsview py-geeadd r-ruv
gzip py-geeup r-rvcheck
h2database py-gemini r-rversions
h5bench py-genders r-rvest
h5cpp py-geneimpacts r-rviennacl
h5hut py-genshi r-rzmq
h5part py-gensim r-s2
h5utils py-geoalchemy2 r-s4vectors
h5z-zfp py-geocube r-samr
hacckernels py-geographiclib r-sandwich
hackrf-host py-geopandas r-sass
hadoop py-geoplot r-satellite
hadoop-xrootd py-geopy r-scaledmatrix
hal py-getorganelle r-scales
halc py-gevent r-scater
half py-gf256 r-scattermore
hama py-gffutils r-scatterpie
hapcut2 py-gimmik r-scatterplot3d
hapdip py-gin-config r-scrime
haploview py-git-review r-sctransform
haproxy py-gitdb r-scuttle
hardlink py-gitpython r-sdmtools
harfbuzz py-glmnet r-segmented
harminv py-glob2 r-selectr
hashcat py-globus-sdk r-seqinr
haveged py-gluoncv r-seqlogo
hazelcast py-gnuplot r-servr
hbase py-goatools r-sessioninfo
hbm-dramsim2 py-gooey r-seurat
hc py-google r-seuratobject
hcoll py-google-api-core r-sf
hdf py-google-api-python-client r-sfheaders
hdf-eos2 py-google-apitools r-sfsmisc
hdf-eos5 py-google-auth r-shadowtext
hdf5 py-google-auth-httplib2 r-shape
hdf5-blosc py-google-auth-oauthlib r-shiny
hdf5-vfd-gds py-google-cloud-core r-shinydashboard
hdf5-vol-async py-google-cloud-storage r-shinyfiles
hdf5-vol-external-passthrough py-google-crc32c r-shinyjs
hdf5-vol-log py-google-pasta r-shinystan
hdfview py-google-resumable-media r-shinythemes
healpix-cxx py-googleapis-common-protos r-shortread
heaptrack py-googledrivedownloader r-siggenes
heasoft py-gosam r-simpleaffy
heffte py-gpaw r-singlecellexperiment
helib py-gpustat r-sitmo
helics py-gputil r-sm
help2man py-gpy r-smoof
henson py-gpyopt r-sn
hepmc py-gpytorch r-snakecase
hepmc3 py-gql r-snow
hepmcanalysis py-grandalf r-snowfall
heppdt py-graphql-core r-snprelate
heputils py-graphviz r-snpstats
hercules py-greenlet r-som
hermes py-grequests r-somaticsignatures
herwig3 py-griddataformats r-sourcetools
herwigpp py-grpcio r-sp
hevea py-grpcio-tools r-spacetime
hibench py-gsd r-spades
hic-pro py-gsi r-spades-addins
hicolor-icon-theme py-gsutil r-spades-core
hicops py-guidata r-spades-tools
highfive py-guiqwt r-spam
highwayhash py-gym r-sparsem
hiop py-h11 r-sparsematrixstats
hip py-h2 r-spatial
hip-rocclr py-h5glance r-spatialeco
hipace py-h5netcdf r-spatialpack
hipblas py-h5py r-spatialreg
hipcub py-h5sh r-spatstat
hipfft py-hacking r-spatstat-core
hipfort py-haphpipe r-spatstat-data
hipify-clang py-hatchet r-spatstat-geom
hipsolver py-hdbscan r-spatstat-linnet
hipsparse py-hdfs r-spatstat-sparse
hipsycl py-healpy r-spatstat-utils
hiredis py-heapdict r-spdata
hisat2 py-hep-ml r-spdep
hisea py-hepdata-converter r-speedglm
hive py-hepdata-lib r-spem
hivex py-hepdata-validator r-splancs
hmmer py-hepunits r-splitstackshape
hohqmesh py-hieroglyph r-sqldf
homer py-hiredis r-squarem
hoomd-blue py-hist r-squash
hoppet py-histbook r-sseq
hotspot py-histogrammar r-stabledist
hpcc py-histoprint r-stanheaders
hpccg py-holland-backup r-stargazer
hpcg py-horovod r-statmod
hpctoolkit py-hpack r-statnet-common
hpcviewer py-hpbandster r-stringfish
hpcx-mpi py-hpcbench r-stringi
hpddm py-hpccm r-stringr
hpgmg py-hstspreload r-strucchange
hping py-html2text r-strucchangercpp
hpl py-html5lib r-styler
hpx py-htmlgen r-subplex
hpx-kokkos py-htseq r-summarizedexperiment
hpx5 py-httpbin r-suppdists
hsa-rocr-dev py-httpcore r-survey
hsakmt py-httplib2 r-survival
hsakmt-roct py-httpretty r-sva
hsf-cmaketools py-httpstan r-svglite
hssp py-httptools r-sys
hstr py-httpx r-systemfonts
hto4l py-huggingface-hub r-tarifx
htop py-humanfriendly r-taxizedb
htslib py-humanize r-tclust
http-get py-hvac r-teachingdemos
http-load py-hypercorn r-tensor
http-parser py-hyperframe r-tensora
http-ping py-hyperlink r-terra
http-post py-hyperopt r-tester
httpd py-hypothesis r-testit
httperf py-ibm-cloud-sdk-core r-testthat
httpie py-ibm-watson r-tfbstools
httping py-ics r-tfisher
httpress py-identify r-tfmpvalue
hub py-idna r-th-data
hudi py-idna-ssl r-threejs
hugo py-illumina-utils r-tibble
hunspell py-ilmbase r-tictoc
hw-probe py-imageio r-tidycensus
hwdata py-imageio-ffmpeg r-tidygraph
hwloc py-imagesize r-tidyr
hybpiper py-imgaug r-tidyselect
hybrid-lambda py-iminuit r-tidytree
hybridsim py-immutables r-tidyverse
hydra py-importlib r-tiff
hydrogen py-importlib-metadata r-tigris
hyperfine py-importlib-resources r-timedate
hyperscan py-incremental r-tinytex
hyphen py-inference-schema r-tmixclust
hyphy py-inheritance r-tmvnsim
hypre py-iniconfig r-topgo
hypre-cmake py-iniparse r-treeio
hztool py-installer r-triebeard
i3 py-intel-openmp r-trimcluster
ibm-databroker py-intensity-normalization r-truncdist
ibm-java py-interface-meta r-truncnorm
ibmisc py-intervaltree r-trust
icarus py-invoke r-tseries
iceauth py-iocapture r-tsne
icedtea py-ipaddress r-ttr
icet py-ipdb r-tweenr
ico py-ipycanvas r-txdb-hsapiens-ucsc-hg18-knowngene
icu4c py-ipyevents r-txdb-hsapiens-ucsc-hg19-knowngene
id3lib py-ipykernel r-tximport
idba py-ipympl r-tximportdata
idl py-ipyparallel r-tzdb
iegenlib py-ipython r-ucminf
ignite py-ipython-cluster-helper r-udunits2
igprof py-ipython-genutils r-units
igraph py-ipyvtk-simple r-upsetr
igv py-ipywidgets r-urca
igvtools py-irpf90 r-urltools
ike-scan py-iso8601 r-usethis
ilmbase py-isodate r-utf8
ima-evm-utils py-isort r-uuid
imagemagick py-itk r-uwot
imake py-itsdangerous r-v8
imgui py-jaconv r-variantannotation
imlib2 py-jamo r-varselrf
imp py-jaraco-functools r-vcd
impalajit-llvm py-javaproperties r-vcfr
impute2 py-jdatetime r-vctrs
infernal py-jdcal r-vegan
influxdb py-jedi r-vfs
iniparser py-jeepney r-vgam
inputproto py-jellyfish r-vioplot
intel py-jinja2 r-vipor
intel-daal py-jinja2-time r-viridis
intel-gpu-tools py-jmespath r-viridislite
intel-gtpin py-joblib r-visnetwork
intel-ipp py-jplephem r-vroom
intel-llvm py-jprops r-vsn
intel-mkl py-jpype1 r-waldo
intel-mpi py-jsmin r-watermelon
intel-mpi-benchmarks py-json-get r-webshot
intel-oneapi-advisor py-json5 r-wgcna
intel-oneapi-ccl py-jsondiff r-whisker
intel-oneapi-compilers py-jsonpatch r-withr
intel-oneapi-dal py-jsonpath-ng r-wk
intel-oneapi-dnn py-jsonpickle r-xde
intel-oneapi-dpl py-jsonpointer r-xfun
intel-oneapi-inspector py-jsonref r-xgboost
intel-oneapi-ipp py-jsonschema r-xlconnect
intel-oneapi-ippcp py-junit-xml r-xlconnectjars
intel-oneapi-mkl py-jupyter r-xlsx
intel-oneapi-mpi py-jupyter-client r-xlsxjars
intel-oneapi-tbb py-jupyter-console r-xmapbridge
intel-oneapi-vpl py-jupyter-core r-xml
intel-oneapi-vtune py-jupyter-packaging r-xml2
intel-parallel-studio py-jupyter-packaging11 r-xnomial
intel-pin py-jupyter-packaging7 r-xopen
intel-tbb py-jupyter-server r-xtable
intel-xed py-jupyter-server-mathjax r-xts
interproscan py-jupyter-telemetry r-xvector
intltool py-jupyterhub r-yaimpute
ioapi py-jupyterlab r-yaml
ior py-jupyterlab-pygments r-yapsa
iozone py-jupyterlab-server r-yaqcaffy
ip py-jupyterlab-widgets r-yarn
ip2 py-jupytext r-yulab-utils
ipcalc py-kaggle r-zcompositions
iperf2 py-kaldiio r-zeallot
iperf3 py-keras r-zip
ipopt py-keras-applications r-zlibbioc
iproute2 py-keras-preprocessing r-zoo
iptraf-ng py-keras2onnx r3d
iq-tree py-kerberos rabbitmq
irep py-keyboard racket
isaac py-keyring racon
isaac-server py-keyrings-alt raft
isc-dhcp py-keystoneauth1 ragel
isescan py-kitchen raja
isl py-kiwisolver ramulator
iso-codes py-kmodes randfold
ispc py-knack random123
istio py-kombu randrproto
itensor py-kornia range-v3
itk py-kosh rankstr
itstool py-kubernetes rapidjson
itsx py-labours raptor2
iwyu py-lap rasdaemon
jackcess py-lark-parser rasqal
jafka py-laspy ratel
jags py-latexcodec ravel
jali py-law raxml
jansi py-lazy raxml-ng
jansi-native py-lazy-object-proxy ray
jansson py-lazy-property rccl
jasper py-lazyarray rclone
jbigkit py-leather rdc
jblob py-lerc rdkit
jchronoss py-lhsmdu rdma-core
jdk py-liac-arff rdp-classifier
jellyfish py-libclang rdptools
jemalloc py-libconf re2
jetty-project py-libensemble re2c
jhpcn-df py-liblas readfq
jimtcl py-librosa readline
jline3 py-lifelines recola
jmol py-lightgbm recola-sm
jogl py-ligo-segments recon
jose py-line-profiler recorder
jpegoptim py-linecache2 recordproto
jq py-lineenhancer redis
json-c py-lit reditools
json-cwx py-lizard redland
json-fortran py-llnl-sina redland-bindings
json-glib py-llvmlite redset
jsoncpp py-lmdb redundans
jsonnet py-lmfit reframe
jstorm py-lmodule regcm
jube py-localcider relax
judy py-locket relion
julea py-lockfile remhos
julia py-logilab-common rempi
junit4 py-louie rename
k8 py-lru-dict rendercheck
kadath py-lscsoft-glue renderproto
kafka py-luigi repeatmasker
kahip py-lws repeatmodeler
kaiju py-lxml repeatscout
kakoune py-lz4 reprimand
kaks-calculator py-lzstring resourceproto
kaldi py-m2r restic
kallisto py-macholib revbayes
karma py-machotools revocap-coupler
kassiopeia py-macs2 revocap-refiner
kbd py-maestrowf rgb
kbproto py-magic rhash
kcov py-mailchecker rinetd
kdiff3 py-make ripgrep
kea py-mako rivet
kealib py-mapclassify rkt-base
keepalived py-markdown rkt-cext-lib
keepassxc py-markdown-it-py rkt-compiler-lib
kentutils py-markdown2 rkt-dynext-lib
keyutils py-markovify rkt-rackunit-lib
kibana py-markupsafe rkt-scheme-lib
kicad py-marshmallow rkt-testing-util-lib
kim-api py-matplotlib rkt-zo-lib
kinesis py-matplotlib-inline rlwrap
kineto py-mayavi rmats
kitty py-mccabe rmgdft
kmergenie py-mdanalysis rmlab
kmod py-mdit-py-plugins rna-seqc
knem py-mechanize rnaquast
kokkos py-meldmd rnaz
kokkos-kernels py-memory-profiler rng-tools
kokkos-kernels-legacy py-memprof rngstreams
kokkos-legacy py-mercantile rnpletal
kokkos-nvcc-wrapper py-merlin rocalution
kraken py-meshio rocblas
kraken2 py-metasv rocfft
krb5 py-methylcode rocketmq
krims py-metpy rocksdb
kripke py-mffpy rockstar
kubernetes py-mg-rast-tools rocm-bandwidth-test
kvasir-mpl py-mido rocm-clang-ocl
kvtree py-mikado rocm-cmake
kylin py-minio rocm-dbgapi
ladot py-minrpc rocm-debug-agent
laghos py-misopy rocm-device-libs
lame py-mistune rocm-gdb
lammps py-mixedhtseq rocm-opencl
landsfcutil py-mizani rocm-openmp-extras
lanl-cmake-modules py-ml-collections rocm-smi
lapackpp py-mlperf-logging rocm-smi-lib
last py-mlxtend rocm-tensile
lastz py-mmcv rocm-validation-suite
laszip py-mmtf-python rocminfo
latex2html py-mne rocprim
latte py-mo-pack rocprofiler-dev
launchmon py-mock rocrand
lazyten py-modred rocsolver
lbann py-moltemplate rocsparse
lbxproxy py-monotonic rocthrust
lbzip2 py-monty roctracer-dev
lcals py-more-itertools roctracer-dev-api
lcgenv py-motmetrics rodinia
lcio py-motor roms
lcms py-mouseinfo root
lcov py-moviepy rose
ldak py-mpi4py ross
ldc py-mpld3 routino
ldc-bootstrap py-mplhep rpcsvc-proto
legion py-mplhep-data rpm
lemon py-mpmath rr
leptonica py-mrcfile rrdtool
lerc py-msal rsbench
less py-msal-extensions rsem
lesstif py-msgpack rstart
leveldb py-msgpack-numpy rstudio
lftp py-msrest rsync
lhapdf py-msrestazure rsyslog
lhapdf5 py-multi-key-dict rt-tests
lhapdfsets py-multidict rtags
libabigail py-multipledispatch rtax
libaec py-multiprocess ruby
libaio py-multiqc ruby-asciidoctor
libao py-munch ruby-erubis
libapplewm py-murmurhash ruby-gnuplot
libapreq2 py-mutagen ruby-hpricot
libarchive py-mx ruby-mustache
libasr py-mxfold2 ruby-narray
libassuan py-myhdl ruby-rake
libatasmart py-mypy ruby-rdiscount
libatomic-ops py-mypy-extensions ruby-ronn
libbacktrace py-mysql-connector-python ruby-rubyinline
libbeagle py-mysqlclient ruby-svn2git
libbeato py-mysqldb1 ruby-terminal-table
libbinio py-nanotime ruby-thor
libblastrampoline py-nara-wpe ruby-tmuxinator
libbsd py-natsort ruby-unicode-display-width
libbson py-nbclassic ruby-xdg
libbytesize py-nbclient ruby-zentest
libc py-nbconvert runc
libcanberra py-nbdime rust
libcap py-nbformat rust-bindgen
libcap-ng py-nbmake sabre
libcatalyst py-nbsphinx saga-gis
libceed py-nc-time-axis sailfish
libcerf py-ndg-httpsclient salmon
libcgroup py-neo salmon-tddft
libcint py-neobolt salome-configuration
libcircle py-neotime salome-med
libconfig py-neovim-remote salome-medcoupling
libconfuse py-nest-asyncio sambamba
libcroco py-nestle samblaster
libctl py-netaddr samrai
libcudf py-netcdf4 samtools
libcuml py-netifaces sandbox
libcumlprims py-netket sarus
libcxxwrap-julia py-networkit satsuma2
libcyaml py-networkx savanna
libdaemon py-neurokit2 saws
libdap4 py-neurolab sblim-sfcc
libdatrie py-neurora sbml
libdc1394 py-nibabel sbp
libdeflate py-nibetaseries sbt
libdivsufsort py-nilearn scala
libdmx py-ninja scalasca
libdrm py-nipype scale
libdwarf py-nistats scallop
libeatmydata py-nitransforms scalpel
libecpint py-niworkflows scan-for-matches
libedit py-nltk scantailor
libefence py-nodeenv scipoptsuite
libelf py-nose scitokens-cpp
libemos py-nose-cov scons
libepoxy py-nose2 scorec-core
libestr py-nosexcover scorep
libev py-notebook scorpio
libevdev py-npx scotch
libevent py-ntlm-auth scr
libevpath py-ntplib screen
libexif py-num2words scripts
libfabric py-numba scrnsaverproto
libfastcommon py-numcodecs scrot
libfastjson py-numexpr scs
libffi py-numexpr3 sctk
libffs py-numpy sdl2
libfive py-numpydoc sdl2-image
libflame py-nvidia-ml-py sdsl-lite
libfms py-nvidia-ml-py3 seacas
libfontenc py-oauth2client seal
libfs py-oauthlib sed
libfuse py-odc-geo sensei
libfyaml py-olefile sentencepiece
libgain py-omegaconf sentieon-genomics
libgcrypt py-onnx seqan
libgd py-onnx-runtime seqkit
libgeotiff py-onnxconverter-common seqprep
libgff py-onnxmltools seqtk
libgit2 py-ont-fast5-api serf
libgpg-error py-opcodes serialbox
libgpuarray py-opencensus sessreg
libgridxc py-opencensus-context setserial
libgssglue py-openidc-client setxkbmap
libgtextutils py-openmc sfcgal
libharu py-openpmd-validator sfcio
libhbaapi py-openpmd-viewer sga
libhio py-openpyxl sgpp
libhugetlbfs py-openslide-python shadow
libiberty py-opentuner shapeit
libibumad py-opppy shapeit4
libical py-opt-einsum shapelib
libice py-or-tools shared-mime-info
libiconv py-ordered-set shark
libid3tag py-ordereddict shc
libidl py-os-service-types shengbte
libidn2 py-oset sherpa
libimagequant py-oslo-config shiny-server
libimobiledevice py-oslo-i18n shiro
libinih py-oslo-serialization shocklibs
libint py-oslo-utils shoremap
libisal py-osqp shortbred
libiscsi py-overpy shortstack
libjpeg py-owslib showfont
libjpeg-turbo py-pacifica-downloader shtools
libjson py-pacifica-namespace shuffile
libjwt py-pacifica-uploader sickle
libkcapi py-packaging sicm
libkml py-pager siesta
libksba py-palettable sigcpp
liblas py-pamela sigio
liblbfgs py-pandas signalp
liblbxutil py-pandocfilters signify
liblockfile py-param silo
liblognorm py-parameterized simde
liblouis py-paramiko simgrid
libluv py-paramz simmetrix-simmodsuite
liblzf py-parmed simplemoc
libmacaroons py-parse simsipm
libmad py-parsedatetime simul
libmatheval py-parsimonious simulationio
libmaus2 py-parsl sina
libmaxminddb py-parso singularity
libmbim py-partd singularity-legacy
libmcrypt py-particle singularityce
libmd py-pastel sio
libmesh py-path-py sionlib
libmetalink py-pathlib sirius
libmicrodns py-pathlib2 skilion-onedrive
libmicrohttpd py-pathos skopeo
libmmtf-cpp py-pathspec sl
libmng py-pathtools slang
libmnl py-patool slate
libmo-unpack py-patsy sleef
libmodbus py-pauvre slepc
libmonitor py-pbr slf4j
libmpdclient py-peachpy slider
libnbc py-pem slirp4netns
libndp py-pep517 sloccount
libnet py-pep8 slurm
libnetfilter-conntrack py-pep8-naming slurm-drmaa
libnetfilter-cthelper py-performance smalt
libnetfilter-cttimeout py-periodictable smartdenovo
libnetfilter-queue py-petastorm smartmontools
libnetworkit py-petsc4py smof
libnfnetlink py-pexpect smproxy
libnfs py-phonenumbers snakemake
libnfsidmap py-phonopy snap
libnftnl py-pickle5 snap-berkeley
libnids py-pickleshare snap-korf
libnl py-picmistandard snappy
libnotify py-picrust snbone
libnova py-picrust2 sniffles
libnrm py-pid snpeff
libnsl py-pika snphylo
libogg py-pil snptest
liboldx py-pillow soapdenovo-trans
libopts py-pillow-simd soapdenovo2
libp11 py-pint soci
libpam py-pip sofa-c
libpaper py-pipits sollve
libpcap py-pispino sollya
libpciaccess py-pkgconfig solr
libpeas py-pkginfo somatic-sniper
libpfm4 py-plac sombrero
libpipeline py-planar sonlib
libplist py-planet sortmerna
libpmemobj-cpp py-platformdirs sos
libpng py-plotly sosflow
libproxy py-plotnine source-highlight
libpsl py-pluggy sowing
libpsml py-ply sox
libpthread-stubs py-pmw sp
libpulsar py-pmw-patched spack
libqglviewer py-pockets spades
libqrencode py-poetry span-lite
libquo py-poetry-core spark
libraw1394 py-pomegranate sparrow
librdkafka py-pooch sparse
librelp py-portalocker sparsehash
libristra py-portend sparskit
librmm py-poster sparta
librom py-pot spath
librsb py-pox spdlog
librsvg py-poyo specfem3d-globe
librtlsdr py-ppft spectra
librttopo py-pre-commit spectre
libsakura py-preshed spectrum-mpi
libsamplerate py-pretrainedmodels speex
libseccomp py-prettytable speexdsp
libsecret py-priority spfft
libsharp py-profilehooks spglib
libshm py-proglog sph2pipe
libsigcpp py-progress spherepack
libsignal-protocol-c py-progressbar2 spindle
libsigsegv py-projectq spiner
libslirp py-prometheus-client spiral-package-fftx
libsm py-promise spiral-package-hcol
libsndfile py-prompt-toolkit spiral-package-mpi
libsodium py-protobuf spiral-package-simt
libspatialindex py-prov spiral-software
libspatialite py-prwlock spla
libspiro py-pspamm spm
libsplash py-psutil spot
libssh py-psyclone sprng
libssh2 py-psycopg2 sqlcipher
libsvm py-ptyprocess sqlite
libszip py-pudb sqlite-jdbc
libtar py-pulp sqlitebrowser
libtasn1 py-pure-eval sqoop
libtermkey py-pure-sasl squashfs
libthai py-py squashfuse
libtheora py-py-cpuinfo squid
libtiff py-py-spy sratoolkit
libtirpc py-py2bit srilm
libtlx py-py2cairo sse2neon
libtomlc99 py-py2neo sshfs
libtommath py-py4j sshpass
libtool py-py6s ssht
libtorrent py-pyaestro ssmtp
libtree py-pyamg sspace-longread
libuecc py-pyaml sspace-standard
libunistring py-pyani sst-core
libunwind py-pyarrow sst-dumpi
libusb py-pyasn1 sst-elements
libusbmuxd py-pyasn1-modules sst-macro
libuser py-pyautogui sst-transports
libuuid py-pybedtools stacks
libuv py-pybids staden-io-lib
libvdwxc py-pybigwig star
libverto py-pybind11 star-ccm-plus
libvips py-pybind11-stubgen starlight
libvorbis py-pybobyqa starpu
libvori py-pybrain startup-notification
libvpx py-pybtex stat
libvterm py-pybtex-docutils stata
libwebp py-pycairo static-analysis-suite
libwebsockets py-pycares stc
libwhich py-pycbc steps
libwindowswm py-pychecker stinger
libx11 py-pycifrw storm
libxau py-pycmd stow
libxaw py-pycocotools strace
libxaw3d py-pycodestyle stream
libxc py-pycompadre strelka
libxcb py-pycortex stress
libxcomposite py-pycosat stress-ng
libxcrypt py-pycparser string-view-lite
libxcursor py-pycrypto stringtie
libxdamage py-pycuda stripack
libxdmcp py-pycurl structure
libxevie py-pydantic strumpack
libxext py-pydap su2
libxfixes py-pydatalog sublime-text
libxfont py-pydeprecate subread
libxfont2 py-pydeps subversion
libxfontcache py-pydicom suite-sparse
libxft py-pydispatcher sumaclust
libxi py-pydmd sumo
libxinerama py-pydocstyle sundials
libxkbcommon py-pydoe suntans
libxkbfile py-pydoe2 superchic
libxkbui py-pydot superlu
libxml2 py-pydot2 superlu-dist
libxmu py-pydotplus superlu-mt
libxp py-pydv supernova
libxpm py-pyeda survey
libxpresent py-pyelftools sw4lite
libxprintapputil py-pyem swan
libxprintutil py-pyepsg swap-assembler
libxrandr py-pyface swarm
libxrender py-pyfaidx swfft
libxres py-pyfasta swftools
libxscrnsaver py-pyfftw swiftsim
libxshmfence py-pyfiglet swig
libxslt py-pyfits swipl
libxsmm py-pyflakes symengine
libxstream py-pyfr symlinks
libxt py-pygdal sympol
libxtrap py-pygdbmi sys-sage
libxtst py-pygelf sysbench
libxv py-pygeos syscalc
libxvmc py-pygetwindow sysfsutils
libxxf86dga py-pygit2 sysget
libxxf86misc py-pygithub sysstat
libxxf86vm py-pyglet systemc
libyaml py-pygments systemtap
libyogrt py-pygments-pytest sz
libzip py-pygobject tabix
libzmq py-pygps tajo
liggghts py-pygpu talass
lighttpd py-pygraphviz talloc
ligra py-pygresql tamaas
likwid py-pygtk tangram
linkphase3 py-pygtrie tantan
linktest py-pyh5md tar
linsys-v py-pyheadtail targetp
linux-headers py-pyinstrument task
linux-pam py-pyinstrument-cext taskd
lis py-pyjnius taskflow
listres py-pyjwt tasmanian
lizard py-pyke tassel
lksctp-tools py-pykml tau
llvm py-pykokkos-base tauola
llvm-amdgpu py-pykwalify tbl2asn
llvm-doe py-pylev tcl
llvm-openmp py-pyliblzma tcl-itcl
llvm-openmp-ompt py-pylikwid tcl-tcllib
lm-sensors py-pylint tcl-tclxml
lmbench py-pylops tclap
lmdb py-pymatgen tcoffee
lmod py-pymc3 tcpdump
lndir py-pymeeus tcptrace
log4c py-pyminifier tcsh
log4cplus py-pymol tdengine
log4cpp py-pymongo tealeaf
log4cxx py-pymoo teckit
logrotate py-pymorph tecplot
logstash py-pympler telegraf
loki py-pymsgbox tempestremap
looptools py-pymumps templight
lordec py-pymysql templight-tools
lorene py-pynacl tengine
lp-solve py-pynio tensorflow-serving-client
lrslib py-pynisher tensorpipe
lrzip py-pynn termcap
lsf py-pynvim tesseract
lshw py-pynvml testdfsio
lsof py-pyodbc testu01
lsscsi py-pyomo tetgen
ltp py-pyopencl tethex
ltr-retriever py-pyopenssl texinfo
ltrace py-pypar texlive
lua py-pyparsing texstudio
lua-bit32 py-pypeflow textparser
lua-bitlib py-pypeg2 tfel
lua-ffi py-pyperclip the-platinum-searcher
lua-lpeg py-pyperf the-silver-searcher
lua-luafilesystem py-pypinyin thepeg
lua-luajit py-pyprecice thornado-mini
lua-luajit-openresty py-pyprof2html thrift
lua-luaposix py-pyproj thrust
lua-mpack py-pypulse tidy-html5
lua-sol2 py-pyqi tig
lucene py-pyqt-builder time
luit py-pyqt4 timedatex
lulesh py-pyqt5 timemory
lumpy-sv py-pyqt5-sip tini
lustre py-pyquaternion tinker
lvarray py-pyrad tinygltf
lvm2 py-pyrect tinyobjloader
lwgrp py-pyrfr tinyxml
lwm2 py-pyro4 tinyxml2
lwtnn py-pyrosar tioga
lxc py-pyrsistent tippecanoe
lynx py-pysam tiptop
lz4 py-pyscaf tix
lzma py-pyscf tixi
lzo py-pyscipopt tk
lzop py-pyscreeze tkrzw
m4 py-pyserial tldd
macfuse py-pyshp tmalign
macsio py-pyside tmhmm
mad-numdiff py-pyside2 tmux
madgraph5amc py-pysimdjson tomcat
madx py-pysmartdl toml11
mafft py-pysocks tophat
magics py-pysolar torque
magma py-pyspark totalview
mahout py-pyspellchecker tpm2-tss
makedepend py-pysqlite tppred
maker py-pysqlite3 tracer
mallocmc py-pystac tracy
maloc py-pystan tracy-client
man-db py-pysurfer tramonto
manta py-pytailf transabyss
mapnik py-pytaridx transdecoder
mapserver py-pytecplot transposome
mapsplice2 py-pytest transrate
maq py-pytest-arraydiff transset
margo py-pytest-benchmark trapproto
mariadb py-pytest-cache tree
mariadb-c-client py-pytest-check-links tree-sitter
mark py-pytest-cov treelite
masa py-pytest-cpp treesub
mash py-pytest-doctestplus trf
masurca py-pytest-flake8 triangle
mathematica py-pytest-flakes trident
matio py-pytest-forked trilinos
matlab py-pytest-html trilinos-catalyst-ioss-adapter
maven py-pytest-httpbin trimal
maverick py-pytest-isort trimgalore
mawk py-pytest-metadata trimmomatic
mbdyn py-pytest-mock trinity
mbedtls py-pytest-mypy trinotate
mc py-pytest-openfiles trnascan-se
mcl py-pytest-parallel truchas
mcpp py-pytest-pep8 tskit
mcutils py-pytest-qt tulip
mdsplus py-pytest-random-order turbine
mdtest py-pytest-runner turbomole
med py-pytest-timeout turnserver
meep py-pytest-xdist tut
mefit py-python-benedict twm
megadock py-python-box tycho2
megahit py-python-certifi-win32 typhon
melissa py-python-constraint typhonio
memaxes py-python-crfsuite uchardet
memcached py-python-daemon ucx
meme py-python-dateutil udunits
memkind py-python-docs-theme ufo-core
memsurfer py-python-dotenv ufo-filters
memtester py-python-editor ufs-utils
meraculous py-python-engineio ufs-weather-model
mercurial py-python-fmask uftrace
mercury py-python-fsutil umap
mesa py-python-gitlab umesimd
mesa-demos py-python-igraph umoci
mesa-glu py-python-jenkins umpire
mesa18 py-python-json-logger unblur
meshkit py-python-keystoneclient uncrustify
meshtool py-python-ldap unibilium
meson py-python-levenshtein unifdef
mesquite py-python-logstash unifyfs
metabat py-python-louvain unigen
metall py-python-lzo unison
metaphysicl py-python-magic units
metis py-python-mapnik unittest-cpp
metkit py-python-meep universal-ctags
mfem py-python-memcached unixodbc
mg py-python-oauth2 unqlite
mgis py-python-picard unrar
microbiomeutil py-python-rapidjson unuran
microsocks py-python-slugify unzip
migraphx py-python-socketio upcxx
migrate py-python-subunit upp
mii py-python-swiftclient uqtk
millepede py-python-utils uriparser
mimalloc py-python-xlib usbutils
minc-toolkit py-python-xmp-toolkit usearch
minced py-python3-xlib userspace-rcu
mindthegap py-pythonqwt utf8cpp
miniaero py-pythonsollya utf8proc
miniamr py-pythran util-linux
miniapp-ascent py-pytimeparse util-linux-uuid
miniasm py-pytoml util-macros
miniconda2 py-pytools uvw
miniconda3 py-pytorch-gradual-warmup-lr vacuumms
minife py-pytorch-lightning valgrind
miniforge3 py-pytorch-sphinx-theme vampirtrace
minigan py-pyts vapor
minighost py-pytweening vardictjava
minigmg py-pytz variorum
minimap2 py-pyudev varnish-cache
minimd py-pyugrid varscan
minio py-pyupgrade vasp
miniqmc py-pyusb vbfnlo
minisign py-pyutilib vc
minismac2d py-pyvcf vcftools
minitri py-pyvista vcsh
minivite py-pyvistaqt vdt
minixyce py-pywavelets veccore
minizip py-pywcs vecgeom
minuit py-pyworld veclibfort
miopen-hip py-pyyaml vecmem
miopen-opencl py-pyzmq vectorclass-version2
miopen-tensile py-qiskit-aer vegas2
miopengemm py-qiskit-terra veloc
mira py-qmtest velvet
miranda py-qpth velvetoptimiser
mirdeep2 py-qrcode verilator
mitofates py-qsymm verrou
mitos py-qtawesome vesta
mivisionx py-qtconsole vgm
mixcr py-qtpy videoproto
mkfontdir py-quantities viennarna
mkfontscale py-quart viewres
mlhka py-quast vifi
mlirmiopen py-quaternionic vigra
mlocate py-queryablelist vim
mlperf-deepcam py-questionary virtest
mmg py-radiant-mlhub virtualgl
mmv py-radical-entk virtuoso
moab py-radical-gtod visit
mochi-margo py-radical-pilot visit-cgns
mochi-thallium py-radical-saga visit-ffp
model-traits py-radical-utils visit-mfem
modeltest-ng py-ranger-fm visit-silo
modern-wheel py-rapidfuzz visit-unv
modylas py-rarfile vite
mofem-cephas py-rasterio vizglow
mofem-fracture-module py-ratelim vmatch
mofem-minimal-surface-equation py-ratelimiter vmc
mofem-users-modules py-raven vmd
mokutil py-ray volk
molcas py-rbtools voropp
molden py-rdflib votca
mongo-c-driver py-rdt votca-csg
mongo-cxx-driver py-readme-renderer votca-csg-tutorials
mongodb-async-driver py-recommonmark votca-csgapps
mono py-redis votca-ctp
montage py-regex votca-tools
moosefs py-reindent votca-xtp
moreutils py-reportlab vpfft
mosh py-repoze-lru vpic
mosquitto py-reproject vsearch
mothur py-requests vsftpd
motif py-requests-ftp vt
motioncor2 py-requests-futures vtable-dumper
mount-point-attributes py-requests-mock vtk
mozjs py-requests-ntlm vtk-h
mpark-variant py-requests-oauthlib vtk-m
mpas-model py-requests-toolbelt vvtest
mpc py-requests-unixsocket w3emc
mpdecimal py-resampy w3m
mpe2 py-responses w3nco
mpest py-restview wannier90
mpfi py-resultsfile warpx
mpfr py-retry watch
mpi-bash py-retry-decorator wayland
mpibind py-retrying wayland-protocols
mpich py-retworkx wcs
mpifileutils py-rfc3986 wcslib
mpilander py-rich webbench
mpileaks py-rios weechat
mpip py-rioxarray weighttp
mpir py-rise wget
mpitrampoline py-rmm wgrib2
mpiwrapper py-rnacocktail wgsim
mpix-launch-swift py-rnc2rng which
mpl py-robotframework whizard
mpt py-rope wi4mpi
mptensor py-rosdep windowswmproto
mrbayes py-rosdistro wiredtiger
mrbench py-rosinstall wireshark
mrchem py-rosinstall-generator wonton
mrcpp py-rospkg wordnet
mrnet py-rply workrave
mrtrix3 py-rpy2 wps
mscgen py-rq wrf
msgpack-c py-rsa wrf-io
mshadow py-rsatoolbox wrk
msmc py-rseqc wsmancli
msmc2 py-rst2pdf wt
mstk py-rtree wtdbg2
mt-metis py-ruamel-ordereddict wxparaver
mujoco py-ruamel-yaml wxpropgrid
multitail py-ruamel-yaml-clib wxwidgets
multitime py-rx x11perf
multiverso py-s3cmd x264
mumax py-s3fs xabclib
mummer py-s3transfer xapian-core
mummer4 py-sacremoses xauth
mumps py-saga-python xbacklight
munge py-salib xbiff
muparser py-sanic xbitmaps
muparserx py-scandir xbraid
muscle py-schema xcalc
muse py-scientificpython xcb-demo
music py-scikit-build xcb-proto
musl py-scikit-fmm xcb-util
muster py-scikit-fuzzy xcb-util-cursor
mutationpp py-scikit-image xcb-util-errors
mvapich2 py-scikit-learn xcb-util-image
mvapich2-gdr py-scikit-learn-extra xcb-util-keysyms
mvapich2x py-scikit-optimize xcb-util-renderutil
mxm py-scinum xcb-util-wm
mxml py-scipy xcb-util-xrm
mxnet py-scooby xcfun
mysql py-scoop xclip
mysqlpp py-scp xclipboard
n2p2 py-scs xclock
nacos py-sdmetrics xcmiscproto
nag py-sdv xcmsdb
nalu py-seaborn xcompmgr
nalu-wind py-secretstorage xconsole
namd py-segmentation-models-pytorch xcursor-themes
nano py-selectors34 xcursorgen
nanoflann py-selenium xdbedizzy
nanomsg py-semantic-version xdelta
nanopb py-semver xditview
nasm py-send2trash xdm
nauty py-sentencepiece xdmf3
nbdkit py-sentry-sdk xdotool
ncbi-magicblast py-seqeval xdpyinfo
ncbi-rmblastn py-seriate xdriinfo
ncbi-toolkit py-serpent xedit
nccl py-setproctitle xerces-c
nccl-tests py-setupmeta xeus
nccmp py-setuptools xev
ncdu py-setuptools-cpp xextproto
ncftp py-setuptools-git xeyes
ncio py-setuptools-rust xf86bigfontproto
ncl py-setuptools-scm xf86dga
nco py-setuptools-scm-git-archive xf86dgaproto
ncompress py-sfepy xf86driproto
ncurses py-sgp4 xf86miscproto
ncview py-sh xf86rushproto
ndiff py-shapely xf86vidmodeproto
neartree py-shellingham xfd
nek5000 py-shiboken xfindproxy
nekbone py-shiboken2 xfontsel
nekcem py-shortuuid xforms
neko py-shroud xfs
nekrs py-shtab xfsdump
nektar py-sierrapy xfsinfo
nektools py-simplegeneric xfsprogs
nemsio py-simplejson xfwp
nemsiogfs py-simplekml xgamma
neo4j py-singledispatch xgboost
neovim py-sip xgc
nest py-six xhmm
net-snmp py-skl2onnx xhost
netcdf-c py-slepc4py xineramaproto
netcdf-cxx py-slurm-pipeline xinit
netcdf-cxx4 py-smac xinput
netcdf-fortran py-smart-open xios
netdata py-smartypants xkbcomp
netgauge py-smmap xkbdata
netgen py-snappy xkbevd
netkit-ftp py-sncosmo xkbprint
netlib-lapack py-sniffio xkbutils
netlib-scalapack py-snowballstemmer xkeyboard-config
netlib-xblas py-snuggs xkill
netpbm py-sobol-seq xlc
netperf py-sonlib xlf
nettle py-sortedcollections xload
neuron py-sortedcontainers xlogo
newt py-soundfile xlsatoms
nextflow py-soupsieve xlsclients
nfft py-spacy xlsfonts
nfs-ganesha py-spacy-models-en-core-web-sm xmag
nfs-utils py-spacy-models-en-vectors-web-lg xman
nghttp2 py-sparse xmessage
nginx py-spatialist xmh
ngmerge py-spatialite xmlf90
ngmlr py-spdlog xmlrpc-c
ngspice py-spectra xmlto
nicstat py-spectral xmodmap
nim py-speech-recognition xmore
ninja py-spefile xnnpack
ninja-fortran py-spgl1 xorg-cf-files
nix py-spglib xorg-docs
njet py-spherical xorg-gtest
nlcglib py-sphinx xorg-server
nlohmann-json py-sphinx-argparse xorg-sgml-doctools
nlohmann-json-schema-validator py-sphinx-autodoc-typehints xphelloworld
nlopt py-sphinx-bootstrap-theme xplor-nih
nmap py-sphinx-copybutton xplsprinters
nn-c py-sphinx-gallery xpmem
nnpack py-sphinx-multiversion xpr
nnvm py-sphinx-rtd-theme xprehashprinterlist
node-js py-sphinx-tabs xprop
notmuch py-sphinxautomodapi xproperty
npb py-sphinxcontrib-applehelp xproto
npm py-sphinxcontrib-bibtex xproxymanagementprotocol
npth py-sphinxcontrib-devhelp xqilla
nrm py-sphinxcontrib-htmlhelp xrandr
ns-3-dev py-sphinxcontrib-issuetracker xrdb
nseg py-sphinxcontrib-jsmath xrefresh
nsimd py-sphinxcontrib-mermaid xrootd
nspr py-sphinxcontrib-napoleon xrx
nss py-sphinxcontrib-programoutput xsbench
ntirpc py-sphinxcontrib-qthelp xscope
ntl py-sphinxcontrib-serializinghtml xsd
ntpoly py-sphinxcontrib-trio xsdk
numactl py-sphinxcontrib-websupport xsdk-examples
numamma py-sphobjinv xset
numap py-spyder xsetmode
numdiff py-spykeutils xsetpointer
nut py-sqlalchemy xsetroot
nvdimmsim py-sqlalchemy-stubs xsimd
nvhpc py-sqlalchemy-utils xsm
nvptx-tools py-sqlparse xstdcmap
nvshmem py-srsly xtensor
nvtop py-sshtunnel xtensor-python
nwchem py-stack-data xterm
nyancat py-statsmodels xtl
ocaml py-stdlib-list xtrans
ocamlbuild py-stestr xtrap
occa py-stevedore xts
oce py-stomp-py xvidtune
oci-systemd-hook py-stopit xvinfo
ocl-icd py-storm xwd
oclgrind py-stratify xwidgets
oclint py-stsci-distutils xwininfo
oclock py-submitit xwud
octa py-subprocess32 xxd-standalone
octave py-subrosa xxhash
octave-arduino py-svgpathtools xyce
octave-control py-svgutils xz
octave-gsl py-svgwrite yajl
octave-instrctl py-symengine yaksa
octave-io py-symfit yambo
octave-optim py-sympy yaml-cpp
octave-quaternion py-syned yara
octave-signal py-systemd-python yarn
octave-splines py-tables yasm
octave-statistics py-tabulate ycsb
octave-struct py-tap-py yoda
octave-symbolic py-tatsu yorick
octopus py-tblib z-checker
odc py-templateflow z3
of-catalyst py-tempora zabbix
of-precice py-tenacity zfp
omega-h py-tensorboard zfs
ompss py-tensorboard-data-server zig
ompt-openmp py-tensorboard-plugin-wit zip
oneapi-level-zero py-tensorboardx zipkin
onednn py-tensorflow zlib
oniguruma py-tensorflow-datasets zlib-ng
onnx py-tensorflow-estimator zoltan
ont-albacore py-tensorflow-hub zookeeper
oommf py-tensorflow-metadata zookeeper-benchmark
op2-dsl py-tensorflow-probability zpares
opa-psm2 py-termcolor zsh
opam py-terminado zstd
opari2 py-terminaltables zstr
open-iscsi py-tern zziplib
open-isns py-testfixtures None

3dtk

Homepage:
Spack package:
Versions:
trunk, 1.2
Build Dependencies:
cmake, ninja, boost, suite-sparse, zlib, libpng, eigen, cgal, gl, glew, freeglut, opencv, cuda
Link Dependencies:
boost, suite-sparse, zlib, libpng, eigen, cgal, gl, glew, freeglut, opencv, cuda
Description:
The 3D Toolkit provides algorithms and methods to process 3D point clouds. It includes automatic high-accurate registration (6D simultaneous localization and mapping, 6D SLAM) and other tools, e.g., a fast 3D viewer, plane extraction software, etc. Several file formats for the point clouds are natively supported, new formats can be implemented easily.

3proxy

Homepage:
Spack package:
Versions:
0.8.13, 0.8.12, 0.8.11
Build Dependencies:
autoconf, automake, libtool, m4
Description:
3proxy - tiny free proxy server

abacus

Homepage:
Spack package:
Versions:
develop, 2.2.1, 2.2.0
Build Dependencies:
elpa, cereal, libxc, fftw, mpi, mkl
Link Dependencies:
elpa, cereal, libxc, fftw, mpi, mkl
Run Dependencies:
mpi
Description:
ABACUS (Atomic-orbital Based Ab-initio Computation at UStc) is an open- source computer code package aiming for large-scale electronic-structure simulations from first principles

abduco

Homepage:
Spack package:
Versions:
0.6, 0.5, 0.4
Description:
abduco provides session management i.e. it allows programs to be run independently from its controlling terminal. That is programs can be detached - run in the background - and then later reattached. Together with dvtm it provides a simpler and cleaner alternative to tmux or screen.

abi-compliance-checker

Homepage:
Spack package:
Versions:
2.3, 2.2, 2.1
Build Dependencies:
abi-dumper, perl, binutils, universal-ctags
Link Dependencies:
abi-dumper, perl, binutils, universal-ctags
Description:
A tool for checking backward compatibility of a C/C++ library API.

abi-dumper

Homepage:
Spack package:
Versions:
1.2, 1.1, 1.0, 0.99.19
Build Dependencies:
perl, elfutils, binutils, universal-ctags, vtable-dumper
Link Dependencies:
perl, elfutils, binutils, universal-ctags, vtable-dumper
Description:
ABI Dumper is a tool to dump ABI of an ELF object containing DWARF debug info.

abinit

Homepage:
Spack package:
Versions:
9.6.1, 9.4.2, 8.10.3, 8.10.2, 8.8.2, 8.6.3, 8.2.2, 8.0.8b
Build Dependencies:
gnuconfig, atompaw, blas, lapack, mpi, scalapack, fftw-api, netcdf-fortran, netcdf-c, hdf5, wannier90, libxc, libxml2
Link Dependencies:
atompaw, blas, lapack, mpi, scalapack, fftw-api, netcdf-fortran, netcdf-c, hdf5, wannier90, libxc, libxml2
Description:
ABINIT is a package whose main program allows one to find the total energy, charge density and electronic structure of systems made of electrons and nuclei (molecules and periodic solids) within Density Functional Theory (DFT), using pseudopotentials and a planewave or wavelet basis. ABINIT also includes options to optimize the geometry according to the DFT forces and stresses, or to perform molecular dynamics simulations using these forces, or to generate dynamical matrices, Born effective charges, and dielectric tensors, based on Density-Functional Perturbation Theory, and many more properties. Excited states can be computed within the Many-Body Perturbation Theory (the GW approximation and the Bethe-Salpeter equation), and Time- Dependent Density Functional Theory (for molecules). In addition to the main ABINIT code, different utility programs are provided.

abseil-cpp

Homepage:
Spack package:
Versions:
20211102.0, 20210324.2, 20210324.1, 20210324.0, 20200923.3, 20200923.2, 20200923.1, 20200225.2, 20200225.1, 20190808, 20181200, 20180600
Build Dependencies:
cmake
Description:
Abseil Common Libraries (C++)

abyss

Homepage:
Spack package:
Versions:
2.3.1, 2.3.0, 2.2.5, 2.1.4, 2.0.2, 1.5.2
Build Dependencies:
gnuconfig, autoconf, automake, mpi, boost, sparsehash, sqlite, libtool
Link Dependencies:
mpi, boost, sparsehash, sqlite, libtool
Run Dependencies:
bwa
Description:
ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size.

accfft

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cuda, cmake, fftw, parallel-netcdf
Link Dependencies:
cuda, fftw, parallel-netcdf
Description:
AccFFT extends existing FFT libraries for CUDA-enabled Graphics Processing Units (GPUs) to distributed memory clusters

acct

Homepage:
Spack package:
Versions:
6.6.4, 6.6.3, 6.6.2
Build Dependencies:
gnuconfig
Description:
Utilities for monitoring process activities.

accumulo

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0, 1.9.3, 1.9.2
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Accumulo is a sorted, distributed key/value store that provides robust, scalable data storage and retrieval.

ace

Homepage:
Spack package:
Versions:
6.5.12, 6.5.6, 6.5.1, 6.5.0
Description:
ACE is an open-source framework that provides many components and patterns for developing high-performance, distributed real-time and embedded systems. ACE provides powerful, yet efficient abstractions for sockets, demultiplexing loops, threads, synchronization primitives.

ack

Homepage:
Spack package:
Versions:
2.22, 2.18, 2.16, 2.14
Build Dependencies:
perl
Link Dependencies:
perl
Description:
ack 2.14 is a tool like grep, optimized for programmers. Designed for programmers with large heterogeneous trees of source code, ack is written purely in portable Perl 5 and takes advantage of the power of Perl's regular expressions.

acl

Homepage:
Spack package:
Versions:
2.2.53, 2.2.52, 2.2.51, 2.2.50, 2.2.49, 2.2.48
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, attr, gettext
Link Dependencies:
attr, gettext
Description:
Commands for Manipulating POSIX Access Control Lists.

acpica-tools

Homepage:
Spack package:
Versions:
20200528, 20200430
Build Dependencies:
flex, bison
Description:
Debian packaging for the ACPICA user space tools

acpid

Homepage:
Spack package:
Versions:
2.0.28, 2.0.27, 2.0.26, 2.0.25, 2.0.24
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
ACPID used to try to handle events internally. Rather than try to climb an ever-growing mountain, ACPID now lets YOU define what events to handle. Any event that publishes itself to /proc/acpi/event can be handled. ACPID reads a set of configuration files which define event->action pairs. This is how you make it do stuff. See the man page for details.

activeharmony

Homepage:
Spack package:
Versions:
4.6.0, 4.5
Description:
Active Harmony: a framework for auto-tuning (the automated search for values to improve the performance of a target application).

activemq

Homepage:
Spack package:
Versions:
5.14.0
Description:
Apache ActiveMQ is a high performance Apache 2.0 licensed Message Broker and JMS 1.1 implementation.

acts

Homepage:
Spack package:
Versions:
main, master, 19.0.0, 18.0.0, 17.1.0, 17.0.0, 16.0.0, 15.1.0, 15.0.1, 15.0.0, 14.1.0, 14.0.0, 13.0.0, 12.0.1, 12.0.0, 11.0.0, 10.0.0, 9.02.0, 9.01.0, 9.00.1, 9.00.0, 8.03.0, 8.02.0, 8.01.0, 8.00.0, 7.00.0, 6.00.0, 5.00.0, 4.01.0, 4.00.0, 3.00.0, 2.00.0, 1.02.1, 1.02.0, 1.01.0, 1.00.0, 0.32.0, 0.31.0, 0.30.0, 0.29.0, 0.28.0, 0.27.1, 0.27.0, 0.26.0, 0.25.2, 0.25.1, 0.25.0, 0.24.0, 0.23.0, 0.22.1, 0.22.0, 0.21.0, 0.20.0, 0.19.0, 0.18.0, 0.17.0, 0.16.0, 0.15.0, 0.14.0, 0.13.0, 0.12.1, 0.12.0, 0.11.1, 0.11.0, 0.10.5, 0.10.4, 0.10.3, 0.10.2, 0.10.1, 0.10.0, 0.09.5, 0.09.4, 0.09.3, 0.09.2, 0.09.1, 0.09.0, 0.08.2, 0.08.1, 0.08.0
Build Dependencies:
cuda, cmake, autodiff, boost, dd4hep, eigen, geant4, hepmc3, heppdt, intel-tbb, nlohmann-json, pythia8, python, py-onnx-runtime, py-pybind11, py-pytest, root
Link Dependencies:
cuda, autodiff, boost, dd4hep, eigen, geant4, hepmc3, heppdt, intel-tbb, nlohmann-json, pythia8, python, py-onnx-runtime, py-pybind11, py-pytest, root
Description:
A Common Tracking Software (Acts) This project contains an experiment- independent set of track reconstruction tools. The main philosophy is to provide high-level track reconstruction modules that can be used for any tracking detector. The description of the tracking detector's geometry is optimized for efficient navigation and quick extrapolation of tracks. Converters for several common geometry description languages exist. Having a highly performant, yet largely customizable implementation of track reconstruction algorithms was a primary objective for the design of this toolset. Additionally, the applicability to real-life HEP experiments plays major role in the development process. Apart from algorithmic code, this project also provides an event data model for the description of track parameters and measurements. Key features of this project include: tracking geometry description which can be constructed from TGeo, DD4Hep, or GDML input, simple and efficient event data model, performant and highly flexible algorithms for track propagation and fitting, basic seed finding algorithms.

addrwatch

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1
Build Dependencies:
gnuconfig, libevent, libpcap
Link Dependencies:
libevent, libpcap
Description:
A tool similar to arpwatch for IPv4/IPv6 and ethernet address pairing monitoring.

adept-utils

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
cmake, boost, mpi
Link Dependencies:
boost, mpi
Description:
Utility libraries for LLNL performance tools.

adf

Homepage:
Spack package:
Versions:
2017.113
Description:
Amsterdam Density Functional (ADF) is a program for first-principles electronic structure calculations that makes use of density functional theory.

adiak

Homepage:
Spack package:
Versions:
0.3.0-alpha, 0.2.1, 0.1.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Adiak collects metadata about HPC application runs and provides it to tools.

adios

Homepage:
Spack package:
Versions:
develop, 1.13.1, 1.13.0, 1.12.0, 1.11.1, 1.11.0, 1.10.0, 1.9.0
Build Dependencies:
gnuconfig, autoconf, automake, m4, libtool, python, mpi, zlib, bzip2, szip, sz, zfp, lz4, c-blosc, hdf5, netcdf-c, libevpath, dataspaces
Link Dependencies:
mpi, zlib, bzip2, szip, sz, zfp, lz4, c-blosc, hdf5, netcdf-c, libevpath, dataspaces
Description:
The Adaptable IO System (ADIOS) provides a simple, flexible way for scientists to describe the data in their code that may need to be written, read, or processed outside of the running simulation.

adios2

Homepage:
Spack package:
Versions:
master, 2.8.0, 2.7.1, 2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.1
Build Dependencies:
cuda, cmake, pkgconfig, libffi, libfabric, mpi, libzmq, dataspaces, hdf5, c-blosc, bzip2, libpng, zfp, sz, python, py-numpy, py-mpi4py
Link Dependencies:
cuda, libffi, libfabric, mpi, libzmq, dataspaces, hdf5, c-blosc, bzip2, libpng, zfp, sz
Run Dependencies:
python, py-numpy, py-mpi4py
Test Dependencies:
python
Description:
The Adaptable Input Output System version 2, developed in the Exascale Computing Program

adlbx

Homepage:
Spack package:
Versions:
master, 1.0.0, 0.9.2, 0.9.1
Build Dependencies:
gnuconfig, exmcutils, autoconf, automake, libtool, m4, mpi
Link Dependencies:
exmcutils, mpi
Description:
ADLB/X: Master-worker library + work stealing and data dependencies

admixtools

Homepage:
Spack package:
Versions:
7.0.2, 7.0.1, 7.0, 6.0, 5.1, 5.0, 1.0.1, 1.0
Build Dependencies:
lapack, gsl
Link Dependencies:
lapack, gsl
Description:
The ADMIXTOOLS package implements 5 methods described in Patterson et al. (2012) Ancient Admixture in Human History. Details of the methods and algorithm can be found in this paper..

adms

Homepage:
Spack package:
Versions:
master, 2.3.7
Build Dependencies:
gnuconfig, bison, flex, perl-xml-libxml
Description:
ADMS is a code generator that converts electrical compact device models specified in high-level description language into ready-to-compile c code for the API of spice simulators.

adol-c

Homepage:
Spack package:
Versions:
master, 2.7.2, 2.7.1, 2.7.0, 2.6.3, 2.6.2, 2.6.1, 2.6.0, 2.5.2, 2.5.1, 2.5.0
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4, boost
Link Dependencies:
boost
Description:
A package for the automatic differentiation of first and higher derivatives of vector functions in C and C++ programs by operator overloading.

advancecomp

Homepage:
Spack package:
Versions:
2.1, 2.0, 1.23, 1.22
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
zlib
Description:
AdvanceCOMP contains recompression utilities for your .zip archives, .png images, .mng video clips and .gz files.

adwaita-icon-theme

Homepage:
Spack package:
Versions:
3.38.0
Build Dependencies:
gnuconfig, gdk-pixbuf, librsvg
Description:
Mostly private use system icons.

aegean

Homepage:
Spack package:
Versions:
0.15.2
Build Dependencies:
genometools
Link Dependencies:
genometools
Description:
The AEGeAn Toolkit is designed for the Analysis and Evaluation of Genome Annotations. The toolkit includes a variety of analysis programs as well as a C library whose API provides access to AEGeAn's core functions and data structures.

aeskeyfind

Homepage:
Spack package:
Versions:
master
Description:
This program illustrates automatic techniques for locating 128-bit and 256-bit AES keys in a captured memory image.

aespipe

Homepage:
Spack package:
Versions:
2.4f, 2.4e, 2.4d, 2.4c, 2.4b, 2.3e, 2.3d
Build Dependencies:
gnuconfig
Description:
aespipe program is AES encrypting or decrypting pipe. It reads from standard input and writes to standard output.

agile

Homepage:
Spack package:
Versions:
1.5.1
Build Dependencies:
gnuconfig, hepmc, boost
Link Dependencies:
hepmc, boost
Description:
AGILe is A Generator Interface Library (& executable), i.e. a uniform object oriented C++ interface for a variety of Fortran-based Monte Carlo event generators..

agrep

Homepage:
Spack package:
Versions:
3.41
Description:
AGREP - an approximate GREP. Fast searching files for a string or regular expression, with approximate matching capabilities and user- definable records. Developed 1989-1991 by Udi Manber, Sun Wu et al. at the University of Arizona.

aida

Homepage:
Spack package:
Versions:
3.2.1
Description:
Abstract Interfaces for Data Analysis

akantu

Homepage:
Spack package:
Versions:
master, 3.0.0
Build Dependencies:
cmake, boost, lapack, python, py-numpy, py-scipy, py-pybind11, mumps, netlib-scalapack, petsc, mpi, scotch
Link Dependencies:
boost, lapack, mumps, netlib-scalapack, petsc, mpi, scotch
Run Dependencies:
python, py-numpy, py-scipy, py-pybind11
Description:
Akantu means a little element in Kinyarwanda, a Bantu language. From now on it is also an opensource object-oriented Finite Element library which has the ambition to be generic and efficient.

alan

Homepage:
Spack package:
Versions:
2.1.1
Description:
Alignment viewer for linux terminal

albany

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, mpi, trilinos
Link Dependencies:
mpi, trilinos
Description:
Albany is an implicit, unstructured grid, finite element code for the solution and analysis of multiphysics problems. The Albany repository on the GitHub site contains hundreds of regression tests and examples that demonstrate the code's capabilities on a wide variety of problems including fluid mechanics, solid mechanics (elasticity and plasticity), ice-sheet flow, quantum device modeling, and many other applications.

albert

Homepage:
Spack package:
Versions:
4.0a_opt4, 4.0a
Build Dependencies:
readline
Link Dependencies:
readline
Description:
Albert is an interactive program to assist the specialist in the study of nonassociative algebra.

alembic

Homepage:
Spack package:
Versions:
1.7.16
Build Dependencies:
cmake, openexr, hdf5, boost, zlib, py-ilmbase
Link Dependencies:
openexr, hdf5, boost, zlib, py-ilmbase
Description:
Alembic is an open computer graphics interchange framework. Alembic distills complex, animated scenes into a non-procedural, application- independent set of baked geometric results.

alglib

Homepage:
Spack package:
Versions:
3.11.0
Description:
ALGLIB is a cross-platform numerical analysis and data processing library.

allpaths-lg

Homepage:
Spack package:
Versions:
52488
Build Dependencies:
gnuconfig
Description:
ALLPATHS-LG is our original short read assembler and it works on both small and large (mammalian size) genomes.

alluxio

Homepage:
Spack package:
Versions:
2.7.2, 2.2.1, 2.2.0
Run Dependencies:
java
Description:
Alluxio (formerly known as Tachyon) is a virtual distributed storage system. It bridges the gap between computation frameworks and storage systems, enabling computation applications to connect to numerous storage systems through a common interface.

alpaka

Homepage:
Spack package:
Versions:
develop, 0.8.0, 0.7.0, 0.6.0, 0.5.0, 0.4.0
Build Dependencies:
cuda, cmake, boost
Link Dependencies:
cuda, cmake, boost
Description:
Abstraction Library for Parallel Kernel Acceleration.

alpgen

Homepage:
Spack package:
Versions:
2.1.4
Build Dependencies:
cmake
Description:
A collection of codes for the generation of multi-parton processes in hadronic collisions.

alps

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
cmake, boost, fftw, hdf5, lapack, python, py-numpy, py-scipy, py-matplotlib
Link Dependencies:
boost, fftw, hdf5, lapack, python, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib
Description:
Algorithms for Physics Simulations Tags: Condensed Matter Physics, Computational Physics

alquimia

Homepage:
Spack package:
Versions:
develop, 1.0.9, xsdk-0.6.0, xsdk-0.5.0, xsdk-0.4.0, xsdk-0.3.0
Build Dependencies:
cmake, mpi, hdf5, pflotran, petsc
Link Dependencies:
mpi, hdf5, pflotran, petsc
Description:
Alquimia is an interface that exposes the capabilities of mature geochemistry codes such as CrunchFlow and PFLOTRAN

alsa-lib

Homepage:
Spack package:
Versions:
1.2.3.2, 1.2.2, 1.1.4.1
Build Dependencies:
gnuconfig
Link Dependencies:
python
Run Dependencies:
python
Description:
The Advanced Linux Sound Architecture (ALSA) provides audio and MIDI functionality to the Linux operating system. alsa-lib contains the user space library that developers compile ALSA applications against.

aluminum

Homepage:
Spack package:
Versions:
master, 1.0.0-lbann, 1.0.0, 0.7.0, 0.6.0, 0.5.0, 0.4.0, 0.3.3, 0.3.2, 0.2.1-1, 0.2.1, 0.2, 0.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, nccl, hwloc, cub, hipcub, ninja
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, nccl, hwloc, cub, hipcub
Description:
Aluminum provides a generic interface to high-performance communication libraries, with a focus on allreduce algorithms. Blocking and non- blocking algorithms and GPU-aware algorithms are supported. Aluminum also contains custom implementations of select algorithms to optimize for certain situations.

ambari

Homepage:
Spack package:
Versions:
2.7.5, 2.7.4, 2.7.3, 2.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-coilmq
Run Dependencies:
python, py-coilmq
Test Dependencies:
py-mock
Description:
Apache Ambari is a tool for provisioning, managing, and monitoring Apache Hadoop clusters. Ambari consists of a set of RESTful APIs and a browser-based management interface.

amber

Homepage:
Spack package:
Versions:
20, 18, 16
Build Dependencies:
cuda, zlib, bzip2, flex, bison, netcdf-fortran, parallel-netcdf, tcsh, mpi
Link Dependencies:
cuda, zlib, bzip2, netcdf-fortran, parallel-netcdf, mpi
Description:
Amber is a suite of biomolecular simulation programs together with Amber tools. A manual download is required for Ambers. Spack will search your current directory for the download files. Alternatively, add the files to a mirror so that Spack can find them. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html Note: Only certain versions of ambertools are compatible with amber. Only the latter version of ambertools for each amber version is supported.

amdblis

Homepage:
Spack package:
Versions:
3.1, 3.0.1, 3.0, 2.2
Build Dependencies:
python
Run Dependencies:
python
Description:
AMD Optimized BLIS. BLIS is a portable software framework for instantiating high-performance BLAS-like dense linear algebra libraries. The framework was designed to isolate essential kernels of computation that, when optimized, immediately enable optimized implementations of most of its commonly used and computationally intensive operations.

amdfftw

Homepage:
Spack package:
Versions:
3.1, 3.0.1, 3.0, 2.2
Build Dependencies:
gnuconfig, mpi, llvm-openmp, texinfo
Link Dependencies:
mpi, llvm-openmp, texinfo
Description:
FFTW (AMD Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof. It is an open-source implementation of the Fast Fourier transform algorithm. It can compute transforms of real and complex-values arrays of arbitrary size and dimension. AMD Optimized FFTW is the optimized FFTW implementation targeted for AMD CPUs. For single precision build, please use precision value as float. Example : spack install amdfftw precision=float

amdlibflame

Homepage:
Spack package:
Versions:
3.1, 3.0.1, 3.0, 2.2
Build Dependencies:
gnuconfig, blas, python
Link Dependencies:
blas
Description:
libFLAME (AMD Optimized version) is a portable library for dense matrix computations, providing much of the functionality present in Linear Algebra Package (LAPACK). It includes a compatibility layer, FLAPACK, which includes complete LAPACK implementation. The library provides scientific and numerical computing communities with a modern, high- performance dense linear algebra library that is extensible, easy to use, and available under an open source license. libFLAME is a C-only implementation and does not depend on any external FORTRAN libraries including LAPACK. There is an optional backward compatibility layer, lapack2flame that maps LAPACK routine invocations to their corresponding native C implementations in libFLAME. This allows legacy applications to start taking advantage of libFLAME with virtually no changes to their source code. In combination with BLIS library which includes optimizations for the AMD EPYC processor family, libFLAME enables running high performing LAPACK functionalities on AMD platform.

amdlibm

Homepage:
Spack package:
Versions:
3.1, 3.0, 2.2
Build Dependencies:
scons, python
Link Dependencies:
mpfr
Run Dependencies:
python
Description:
AMD LibM is a software library containing a collection of basic math functions optimized for x86-64 processor-based machines. It provides many routines from the list of standard C99 math functions. Applications can link into AMD LibM library and invoke math functions instead of compiler's math functions for better accuracy and performance.

amdscalapack

Homepage:
Spack package:
Versions:
3.1, 3.0, 2.2
Build Dependencies:
cmake, mpi, lapack, blas
Link Dependencies:
mpi, lapack, blas
Description:
ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines. It depends on external libraries including BLAS and LAPACK for Linear Algebra computations. AMD's optimized version of ScaLAPACK enables using BLIS and LibFLAME library that have optimized dense matrix functions and solvers for AMD EPYC processor family CPUs.

amg

Homepage:
Spack package:
Versions:
develop, 1.2, 1.1, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
AMG is a parallel algebraic multigrid solver for linear systems arising from problems on unstructured grids. The driver provided with AMG builds linear systems for various 3-dimensional problems.

amg2013

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
AMG2013 is a parallel algebraic multigrid solver for linear systems arising from problems on unstructured grids. It has been derived directly from the BoomerAMG solver in the hypre library, a large linear solver library that is being developed in the Center for Applied Scientific Computing (CASC) at LLNL.

amgx

Homepage:
Spack package:
Versions:
2.1.0, 2.0.1, 2.0.0
Build Dependencies:
cuda, cmake, mpi, mkl, magma
Link Dependencies:
cuda, mpi, mkl, magma
Description:
AmgX provides a simple path to accelerated core solver technology on NVIDIA GPUs. AmgX provides up to 10x acceleration to the computationally intense linear solver portion of simulations, and is especially well suited for implicit unstructured methods. It is a high performance, state-of-the-art library and includes a flexible solver composition system that allows a user to easily construct complex nested solvers and preconditioners.

aml

Homepage:
Spack package:
Versions:
master, 0.1.0
Build Dependencies:
gnuconfig, numactl, m4, autoconf, automake, libtool
Link Dependencies:
numactl
Description:
AML: Building Blocks for Memory Management.

amp

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, blas, lapack, boost, hdf5, hypre, libmesh, netcdf-c, petsc, silo, sundials, trilinos, zlib, mpi
Link Dependencies:
blas, lapack, boost, hdf5, hypre, libmesh, netcdf-c, petsc, silo, sundials, trilinos, zlib, mpi
Description:
The Advanced Multi-Physics (AMP) package. The Advanced Multi-Physics (AMP) package is an open source parallel object-oriented computational framework that is designed with single and multi-domain multi-physics applications in mind.

ampl

Homepage:
Spack package:
Versions:
20210226, 20190529
Description:
AMPL integrates a modeling language for describing optimization data, variables, objectives, and constraints; a command language for debugging models and analyzing results; and a scripting language for manipulating data and implementing optimization strategies.

ampliconnoise

Homepage:
Spack package:
Versions:
1.29
Build Dependencies:
mpi, gsl
Link Dependencies:
mpi, gsl
Description:
AmpliconNoise is a collection of programs for the removal of noise from 454 sequenced PCR amplicons.

amr-wind

Homepage:
Spack package:
Versions:
main
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, hypre, masa, mpi, netcdf-c, openfast, py-matplotlib, py-pandas
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hypre, masa, mpi, netcdf-c, openfast, py-matplotlib, py-pandas
Description:
AMR-Wind is a massively parallel, block-structured adaptive-mesh, incompressible flow sover for wind turbine and wind farm simulations.

amrex

Homepage:
Spack package:
Versions:
develop, 22.05, 22.04, 22.03, 22.02, 22.01, 21.12, 21.11, 21.10, 21.09, 21.08, 21.07, 21.06, 21.05, 21.04, 21.03, 21.02, 21.01, 20.12, 20.11, 20.10, 20.09, 20.08, 20.07, 20.06, 20.05, 20.04, 20.03, 20.02, 20.01, 19.10, 19.08, 18.10.1, 18.10, 18.09.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, sundials, python, hdf5, rocrand, rocprim
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, sundials, hdf5, hypre, petsc
Description:
AMReX is a publicly available software framework designed for building massively parallel block- structured adaptive mesh refinement (AMR) applications.

amrvis

Homepage:
Spack package:
Versions:
main
Build Dependencies:
gmake, mpi, libsm, libice, libxpm, libx11, libxt, libxext, motif, flex, bison
Link Dependencies:
mpi, libsm, libice, libxpm, libx11, libxt, libxext, motif, flex, bison
Description:
Amrvis is a visualization package specifically designed to read and display output and profiling data from codes built on the AMReX framework.

anaconda2

Homepage:
Spack package:
Versions:
2019.10, 2019.07, 2019.03, 2018.12, 5.3.1, 5.3.0, 5.2.0, 5.1.0, 5.0.1, 5.0.0.1, 5.0.0, 4.4.0, 4.3.1, 4.3.0, 4.2.0, 4.1.1, 4.1.0, 4.0.0, 2.5.0, 2.4.1, 2.4.0
Description:
Anaconda is a free and open-source distribution of the Python and R programming languages for scientific computing, that aims to simplify package management and deployment. Package versions are managed by the package management system conda.

anaconda3

Homepage:
Spack package:
Versions:
2021.05, 2020.11, 2020.07, 2020.02, 2019.10, 2019.07, 2019.03, 2018.12, 5.3.1, 5.3.0, 5.2.0, 5.1.0, 5.0.1, 5.0.0.1, 5.0.0, 4.4.0, 4.3.1, 4.3.0, 4.2.0, 4.1.1, 4.1.0, 4.0.0, 2.5.0, 2.4.1, 2.4.0, 2.3.0, 2.2.0, 2.1.0, 2.0.1, 2.0.0
Description:
Anaconda is a free and open-source distribution of the Python and R programming languages for scientific computing, that aims to simplify package management and deployment. Package versions are managed by the package management system conda.

andi

Homepage:
Spack package:
Versions:
0.14, 0.10
Build Dependencies:
gnuconfig, pkgconfig, m4, autoconf, automake, libtool, gsl, libdivsufsort
Link Dependencies:
gsl, libdivsufsort
Description:
andi is used for for estimating the evolutionary distance between closely related genomes.

angsd

Homepage:
Spack package:
Versions:
0.935, 0.933, 0.921, 0.919
Build Dependencies:
htslib, zlib, lzma, curl
Link Dependencies:
htslib, zlib, lzma, curl
Run Dependencies:
r
Description:
Angsd is a program for analysing NGS data. The software can handle a number of different input types from mapped reads to imputed genotype probabilities. Most methods take genotype uncertainty into account instead of basing the analysis on called genotypes. This is especially useful for low and medium depth data.

ant

Homepage:
Spack package:
Versions:
1.10.7, 1.10.6, 1.10.5, 1.10.4, 1.10.3, 1.10.2, 1.10.1, 1.10.0, 1.9.9, 1.9.8, 1.9.7, 1.9.6
Build Dependencies:
java
Link Dependencies:
java
Description:
Apache Ant is a Java library and command-line tool whose mission is to drive processes described in build files as targets and extension points dependent upon each other

antimony

Homepage:
Spack package:
Versions:
2.8, 2.7, 2.6, 2.5, 2.4, 2.2, 2.0
Build Dependencies:
cmake, sbml, swig, qt, python
Link Dependencies:
sbml, swig, qt, python
Description:
Human readable language for modifying sbml

antlr

Homepage:
Spack package:
Versions:
2.7.7
Build Dependencies:
gnuconfig, python, java
Run Dependencies:
python, java
Description:
ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files. It's widely used to build languages, tools, and frameworks. From a grammar, ANTLR generates a parser that can build and walk parse trees.

ants

Homepage:
Spack package:
Versions:
20220205, 2.3.5, 2.2.0
Build Dependencies:
cmake
Link Dependencies:
zlib
Description:
ANTs extracts information from complex datasets that include imaging. Paired with ANTsR (answer), ANTs is useful for managing, interpreting and visualizing multidimensional data. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit. ANTs depends on the Insight ToolKit (ITK), a widely used medical image processing library to which ANTs developers contribute.

aocc

Homepage:
Spack package:
Versions:
3.2.0, 3.1.0, 3.0.0, 2.3.0, 2.2.0
Build Dependencies:
libxml2, zlib, ncurses, libtool, texinfo
Link Dependencies:
libxml2, zlib, ncurses, libtool, texinfo
Description:
The AOCC compiler system is a high performance, production quality code generation tool. The AOCC environment provides various options to developers when building and optimizing C, C++, and Fortran applications targeting 32-bit and 64-bit Linux platforms. The AOCC compiler system offers a high level of advanced optimizations, multi-threading and processor support that includes global optimization, vectorization, inter-procedural analyses, loop transformations, and code generation. AMD also provides highly optimized libraries, which extract the optimal performance from each x86 processor core when utilized. The AOCC Compiler Suite simplifies and accelerates development and tuning for x86 applications. Please install only if you agree to terms and conditions depicted under : https://developer.amd.com/wordpress/media/files/AOCC_EULA.pdf Example for installation: 'spack install aocc +license-agreed'

aocl-sparse

Homepage:
Spack package:
Versions:
3.1, 3.0, 2.2
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
AOCL-Sparse is a library that contains basic linear algebra subroutines for sparse matrices and vectors optimized for AMD EPYC family of processors. It is designed to be used with C and C++. Current functionality of sparse library supports SPMV function with CSR and ELLPACK formats.

aoflagger

Homepage:
Spack package:
Versions:
2.10.0
Build Dependencies:
cmake, casacore, fftw, boost, libxml2, lapack, cfitsio
Link Dependencies:
casacore, fftw, boost, libxml2, lapack, cfitsio
Description:
RFI detector and quality analysis for astronomical radio observations.

aom

Homepage:
Spack package:
Versions:
v1.0.0-errata1
Build Dependencies:
cmake, yasm
Link Dependencies:
yasm
Description:
Alliance for Open Media AOM AV1 Codec Library

aomp

Homepage:
Spack package:
Versions:
3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, python, py-setuptools, gl, py-pip, py-wheel, perl-data-dumper, awk, elfutils, libffi, hsakmt-roct, comgr, hsa-rocr-dev, rocm-device-libs, hip, hip-rocclr, rocm-gdb
Link Dependencies:
gl, elfutils, libffi, hsakmt-roct, hsa-rocr-dev, rocm-device-libs, hip, hip-rocclr, rocm-gdb
Run Dependencies:
py-wheel
Description:
llvm openmp compiler from AMD.

apachetop

Homepage:
Spack package:
Versions:
0.19.7, 0.18.4, 0.17.4, 0.15.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, readline
Link Dependencies:
readline
Description:
ApacheTop watches a logfile generated by Apache (in standard common or combined logformat, and generates human-parsable output in realtime.) See the INSTALL file for ./configure options (there's a few newly added since v0.11)

apcomp

Homepage:
Spack package:
Versions:
master, 0.0.4, 0.0.3, 0.0.2, 0.0.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
A multi use-case image compositor

ape

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
gsl, libxc
Link Dependencies:
gsl, libxc
Description:
A tool for generating atomic pseudopotentials within a Density- Functional Theory framework

aperture-photometry

Homepage:
Spack package:
Versions:
3.0.2, 2.8.4, 2.8.2
Build Dependencies:
java
Link Dependencies:
java
Description:
Aperture Photometry Tool APT is software for astronomical research

apex

Homepage:
Spack package:
Versions:
develop, master, 2.5.1, 2.5.0, 2.4.1, 2.4.0, 2.3.2, 2.3.1, 2.3.0, 2.2.0
Build Dependencies:
cmake, zlib, binutils, activeharmony, otf2, mpi, gperftools, jemalloc, lm-sensors, papi, cuda, hip, roctracer-dev, rocm-smi-lib, boost
Link Dependencies:
zlib, binutils, activeharmony, otf2, mpi, gperftools, jemalloc, lm-sensors, papi, cuda, hip, roctracer-dev, rocm-smi-lib, boost
Description:
Autonomic Performance Environment for eXascale (APEX).

apfel

Homepage:
Spack package:
Versions:
3.0.4
Build Dependencies:
gnuconfig, swig, python, lhapdf
Link Dependencies:
swig
Run Dependencies:
python, lhapdf
Description:
APFEL is a library able to perform DGLAP evolution up to NNLO in QCD and to NLO in QED, both with pole and MSbar masses. The coupled DGLAP QCD+QED evolution equations are solved in x-space by means of higher order interpolations and Runge-Kutta techniques.

apktool

Homepage:
Spack package:
Versions:
2.6.1, 2.6.0
Build Dependencies:
java
Run Dependencies:
java
Description:
A tool for reverse engineering 3rd party, closed, binary Android apps.

apple-libunwind

Homepage:
Spack package:
Description:
Placeholder package for Apple's analogue to non-GNU libunwind

apple-libuuid

Homepage:
Spack package:
Versions:
1353.100.2
Description:
Placeholder package for Apple's analogue to non-GNU libuuid

applewmproto

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Apple Rootless Window Management Extension. This extension defines a protcol that allows X window managers to better interact with the Mac OS X Aqua user interface when running X11 in a rootless mode.

appres

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libx11, libxt, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, xproto
Description:
The appres program prints the resources seen by an application (or subhierarchy of an application) with the specified class and instance names. It can be used to determine which resources a particular program will load.

apptainer

Homepage:
Spack package:
Versions:
main, 1.0.2
Build Dependencies:
pkgconfig, go, uuid, libgpg-error, libseccomp, git, cryptsetup
Link Dependencies:
go, uuid, libgpg-error, libseccomp, git
Run Dependencies:
squashfs, shadow, cryptsetup
Description:
Apptainer is an open source container platform designed to be simple, fast, and secure. Many container platforms are available, but Apptainer is designed for ease-of-use on shared systems and in high performance computing (HPC) environments. Needs post-install chmod/chown steps to enable full functionality. See package definition or `spack-build- out.txt` build log for details, e.g.:: tail -15 $(spack location -i apptainer)/.spack/spack-build-out.txt

apr

Homepage:
Spack package:
Versions:
1.7.0, 1.6.2, 1.5.2
Build Dependencies:
gnuconfig
Link Dependencies:
uuid
Description:
Apache portable runtime.

apr-util

Homepage:
Spack package:
Versions:
1.6.1, 1.6.0, 1.5.4
Build Dependencies:
gnuconfig, apr, expat, iconv, openssl, gdbm, postgresql, sqlite, unixodbc
Link Dependencies:
apr, expat, iconv, openssl, gdbm, postgresql, sqlite, unixodbc
Description:
Apache Portable Runtime Utility

aragorn

Homepage:
Spack package:
Versions:
1.2.38, 1.2.36
Description:
ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.

arbor

Homepage:
Spack package:
Versions:
master, 0.6, 0.5.2, 0.5
Build Dependencies:
cuda, cmake, fmt, nlohmann-json, libxml2, mpi, py-mpi4py, python, py-numpy, py-pybind11, py-sphinx, py-svgwrite
Link Dependencies:
cuda, fmt, nlohmann-json, libxml2, mpi
Run Dependencies:
py-mpi4py, python, py-numpy, py-pybind11
Description:
Arbor is a high-performance library for computational neuroscience simulations.

arborx

Homepage:
Spack package:
Versions:
master, 1.2, 1.1, 1.0, 0.9-beta
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, rocthrust, kokkos, trilinos
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, rocthrust, kokkos, trilinos
Description:
ArborX is a performance-portable library for geometric search

archer

Homepage:
Spack package:
Versions:
2.0.0, 1.0.0
Build Dependencies:
cmake, llvm, ninja, llvm-openmp-ompt
Link Dependencies:
llvm, llvm-openmp-ompt
Description:
ARCHER, a data race detection tool for large OpenMP applications.

argobots

Homepage:
Spack package:
Versions:
main, 1.1, 1.0.1, 1.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, valgrind, libunwind
Link Dependencies:
valgrind, libunwind
Description:
Argobots, which was developed as a part of the Argo project, is a lightweight runtime system that supports integrated computation and data movement with massive concurrency. It will directly leverage the lowest- level constructs in the hardware and OS: lightweight notification mechanisms, data movement engines, memory mapping, and data placement strategies. It consists of an execution model and a memory model.

argon2

Homepage:
Spack package:
Versions:
20190702, 20171227, 20161029
Description:
Argon2 is a password-hashing function that summarizes the state of the art in the design of memory-hard functions and can be used to hash passwords for credential storage, key derivation, or other applications.

argp-standalone

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
gnuconfig
Description:
Standalone version of the argp interface from glibc for parsing unix- style arguments.

args

Homepage:
Spack package:
Versions:
6.2.3, 6.2.2, 6.2.1
Build Dependencies:
cmake
Description:
A simple header-only C++ argument parser library. Supposed to be flexible and powerful, and attempts to be compatible with the functionality of the Python standard argparse library (though not necessarily the API).

argtable

Homepage:
Spack package:
Versions:
2-13
Build Dependencies:
gnuconfig
Description:
Argtable is an ANSI C library for parsing GNU style command line options with a minimum of fuss.

aria2

Homepage:
Spack package:
Versions:
1.36.0, 1.35.0, 1.34.0
Build Dependencies:
gnuconfig, libxml2, libssh2, libgcrypt, zlib, c-ares, sqlite
Link Dependencies:
libxml2, libssh2, libgcrypt, zlib, c-ares, sqlite
Description:
An ultra fast download utility

arm

Homepage:
Spack package:
Versions:
22.0.1
Description:
Arm Compiler combines the optimized tools and libraries from Arm with a modern LLVM-based compiler framework.

arm-forge

Homepage:
Spack package:
Versions:
22.0.1, 22.0, 21.1.3, 21.1.2, 21.1.1, 21.1, 21.0.3, 21.0.2, 21.0.1, 21.0
Build Dependencies:
python
Description:
Arm Forge is the complete toolsuite for software development - with everything needed to debug, profile, optimize, edit and build C, C++ and Fortran applications on Linux for high performance - from single threads through to complex parallel HPC codes with MPI, OpenMP, threads or CUDA.

armadillo

Homepage:
Spack package:
Versions:
10.5.0, 9.800.3, 8.100.1, 7.950.1
Build Dependencies:
cmake, arpack-ng, blas, lapack, superlu, hdf5
Link Dependencies:
arpack-ng, blas, lapack, superlu, hdf5
Description:
Armadillo is a high quality linear algebra library (matrix maths) for the C++ language, aiming towards a good balance between speed and ease of use.

armpl

Homepage:
Spack package:
Versions:
22.0.1_gcc-11.2, 22.0.1_gcc-10.2, 22.0.1_gcc-9.3, 22.0.1_gcc-8.2, 22.0.1_gcc-7.5
Description:
Arm Performance Libraries provides optimized standard core math libraries for high-performance computing applications on Arm processors.

arpack-ng

Homepage:
Spack package:
Versions:
develop, 3.8.0, 3.7.0, 3.6.3, 3.6.2, 3.6.0, 3.5.0, 3.4.0, 3.3.0
Build Dependencies:
blas, lapack, automake, autoconf, libtool, cmake, mpi
Link Dependencies:
blas, lapack, mpi
Description:
ARPACK-NG is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems. Important Features: * Reverse Communication Interface. * Single and Double Precision Real Arithmetic Versions for Symmetric, Non-symmetric, Standard or Generalized Problems. * Single and Double Precision Complex Arithmetic Versions for Standard or Generalized Problems. * Routines for Banded Matrices - Standard or Generalized Problems. * Routines for The Singular Value Decomposition. * Example driver routines that may be used as templates to implement numerous Shift-Invert strategies for all problem types, data types and precision. This project is a joint project between Debian, Octave and Scilab in order to provide a common and maintained version of arpack. Indeed, no single release has been published by Rice university for the last few years and since many software (Octave, Scilab, R, Matlab...) forked it and implemented their own modifications, arpack-ng aims to tackle this by providing a common repository and maintained versions. arpack-ng is replacing arpack almost everywhere.

arrayfire

Homepage:
Spack package:
Versions:
master, 3.8.1, 3.7.3, 3.7.2, 3.7.0
Build Dependencies:
cuda, cmake, boost, fftw-api, blas, cudnn, opencl, fontconfig, glfw
Link Dependencies:
cuda, boost, fftw-api, blas, cudnn, opencl, fontconfig, glfw
Description:
ArrayFire is a high performance software library for parallel computing with an easy-to-use API. Its array based function set makes parallel programming more accessible.

arrow

Homepage:
Spack package:
Versions:
8.0.0, 7.0.0, 4.0.1, 3.0.0, 0.17.1, 0.15.1, 0.15.0, 0.14.1, 0.12.1, 0.11.0, 0.9.0, 0.8.0
Build Dependencies:
cuda, cmake, boost, flatbuffers, python, py-numpy, rapidjson, snappy, zlib, zstd, thrift, orc
Link Dependencies:
cuda, boost, flatbuffers, python, py-numpy, rapidjson, snappy, zlib, zstd, thrift, orc
Description:
A cross-language development platform for in-memory data. This package contains the C++ bindings.

asagi

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
cmake, mpi, netcdf-c, numactl
Link Dependencies:
mpi, netcdf-c, numactl
Description:
a pArallel Server for Adaptive GeoInformation.

ascent

Homepage:
Spack package:
Versions:
develop, 0.8.0, 0.7.1, 0.7.0, 0.6.0
Build Dependencies:
cuda, cmake, conduit, python, py-numpy, py-pip, mpi, py-mpi4py, babelflow, parallelmergetree, vtk-h, vtk-m, mfem, fides, dray, adios2, py-sphinx, py-sphinx-rtd-theme
Link Dependencies:
cuda, conduit, python, mpi, py-mpi4py, babelflow, parallelmergetree, vtk-h, vtk-m, mfem, fides, dray, adios2
Run Dependencies:
python, py-numpy, py-pip
Description:
Ascent is an open source many-core capable lightweight in situ visualization and analysis infrastructure for multi-physics HPC simulations.

asciidoc

Homepage:
Spack package:
Versions:
master, 9.1.0, 9.0.5, 9.0.4, 9.0.3, 9.0.2, 8.6.10, 8.6.9
Build Dependencies:
gnuconfig, libxml2, libxslt, docbook-xml, docbook-xsl, python, autoconf, automake, libtool
Run Dependencies:
libxml2, libxslt, docbook-xml, docbook-xsl, python
Description:
A presentable text document format for writing articles, UNIX man pages and other small to medium sized documents.

asciidoc-py3

Homepage:
Spack package:
Versions:
9.1.0, 9.0.5, 9.0.4, 9.0.3, 9.0.2
Build Dependencies:
gnuconfig, python, libxml2, libxslt, docbook-xml, docbook-xsl
Run Dependencies:
python, libxml2, libxslt, docbook-xml, docbook-xsl
Description:
Python 3 port of Asciidoc Python. AsciiDoc is a text document format for writing notes, documentation, articles, books, ebooks, slideshows, web pages, man pages and blogs. AsciiDoc files can be translated to many formats including HTML, PDF, EPUB, man page.

asdcplib

Homepage:
Spack package:
Versions:
2_10_35, 2_10_34, 2_10_33, 2_10_32
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, openssl
Link Dependencies:
openssl
Description:
AS-DCP and AS-02 File Access Library.

asdf-cxx

Homepage:
Spack package:
Versions:
7.2.1, 7.2.0, 7.1.0, 7.0.0, 6.3.0, 6.0.0, 5.0.0, 4.0.1, 3.1.0, 3.0.0, 2.6.1, 2.5.1, 2.5.0, 2.4.1, 2.4.0, 2.3.1, 2.2.1, 2.1.1, 2.1.0, 1.1.0, 1.0.0
Build Dependencies:
cmake, bzip2, openssl, py-numpy, python, swig, yaml-cpp, zlib
Link Dependencies:
bzip2, openssl, yaml-cpp, zlib
Run Dependencies:
py-numpy, python
Description:
ASDF - Advanced Scientific Data Format, a C++ implementation

asio

Homepage:
Spack package:
Versions:
1.21.0, 1.20.0, 1.19.2, 1.19.1, 1.19.0, 1.18.2, 1.18.1, 1.18.0, 1.17.0, 1.16.1, 1.16.0
Build Dependencies:
gnuconfig, autoconf, automake, m4, libtool, boost
Link Dependencies:
boost
Description:
C++ library for network and low-level I/O programming.

aspa

Homepage:
Spack package:
Versions:
master
Build Dependencies:
lapack, blas, mpi, hdf5
Link Dependencies:
lapack, blas, mpi, hdf5
Description:
A fundamental premise in ExMatEx is that scale-bridging performed in heterogeneous MPMD materials science simulations will place important demands upon the exascale ecosystem that need to be identified and quantified.

aspcud

Homepage:
Spack package:
Versions:
1.9.5, 1.9.4
Build Dependencies:
cmake, boost, re2c, clingo
Link Dependencies:
clingo
Description:
Aspcud: Package dependency solver Aspcud is a solver for package dependencies. A package universe and a request to install, remove, or upgrade packages have to be encoded in the CUDF format. Such a CUDF document can then be passed to aspcud along with an optimization criteria to obtain a solution to the given package problem.

aspect

Homepage:
Spack package:
Versions:
develop, 2.3.0, 2.2.0, 2.1.0, 2.0.1, 2.0.0
Build Dependencies:
cmake, dealii, dealii-parameter-gui, libdap4
Link Dependencies:
dealii, dealii-parameter-gui, libdap4
Description:
Parallel and extensible Finite Element code to simulate convection in the Earth's mantle and elsewhere.

aspell

Homepage:
Spack package:
Versions:
0.60.6.1
Build Dependencies:
gnuconfig
Description:
GNU Aspell is a Free and Open Source spell checker designed to eventually replace Ispell.

aspell6-de

Homepage:
Spack package:
Versions:
6-de-20030222-1
Build Dependencies:
gnuconfig, aspell
Run Dependencies:
aspell
Description:
German (de) dictionary for aspell.

aspell6-en

Homepage:
Spack package:
Versions:
2017.01.22-0
Build Dependencies:
gnuconfig, aspell
Run Dependencies:
aspell
Description:
English (en) dictionary for aspell.

aspell6-es

Homepage:
Spack package:
Versions:
1.11-2
Build Dependencies:
gnuconfig, aspell
Run Dependencies:
aspell
Description:
Spanish (es) dictionary for aspell.

aspera-cli

Homepage:
Spack package:
Versions:
3.7.7
Description:
The Aspera CLI client for the Fast and Secure Protocol (FASP).

assimp

Homepage:
Spack package:
Versions:
master, 5.2.3, 5.2.2, 5.2.1, 5.1.4, 5.1.3, 5.0.1, 4.0.1
Build Dependencies:
cmake, pkgconfig, zlib
Link Dependencies:
zlib
Description:
Open Asset Import Library (Assimp) is a portable Open Source library to import various well-known 3D model formats in a uniform manner.

astra

Homepage:
Spack package:
Versions:
2020-02-03
Build Dependencies:
libxcb, libx11
Link Dependencies:
libxcb, libx11
Description:
A Space Charge Tracking Algorithm.

astral

Homepage:
Spack package:
Versions:
5.7.1, 5.6.1, 4.10.7
Build Dependencies:
java, zip
Run Dependencies:
java
Description:
ASTRAL is a tool for estimating an unrooted species tree given a set of unrooted gene trees.

astyle

Homepage:
Spack package:
Versions:
3.1, 3.0.1, 2.06, 2.05.1, 2.04
Description:
A Free, Fast, and Small Automatic Formatter for C, C++, C++/CLI, Objective-C, C#, and Java Source Code.

at-spi2-atk

Homepage:
Spack package:
Versions:
2.38.0, 2.34.2, 2.26.2, 2.26.1
Build Dependencies:
meson, ninja, pkgconfig, at-spi2-core, atk
Link Dependencies:
at-spi2-core, atk
Description:
The At-Spi2 Atk package contains a library that bridges ATK to At-Spi2 D-Bus service.

at-spi2-core

Homepage:
Spack package:
Versions:
2.40.1, 2.38.0, 2.36.0, 2.28.0
Build Dependencies:
meson, ninja, glib, dbus, gettext, libx11, libxi, libxtst, recordproto, inputproto, fixesproto, pkgconfig, python, gobject-introspection
Link Dependencies:
glib, dbus, gettext, libx11, libxi, libxtst, recordproto, inputproto, fixesproto, gobject-introspection
Description:
The At-Spi2 Core package provides a Service Provider Interface for the Assistive Technologies available on the GNOME platform and a library against which applications can be linked.

atf

Homepage:
Spack package:
Versions:
0.21, 0.20, 0.19
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
ATF, or Automated Testing Framework, is a collection of libraries to write test programs in C, C++ and POSIX shell.

athena

Homepage:
Spack package:
Versions:
master, 4.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, fftw
Link Dependencies:
mpi, fftw
Description:
Athena is a grid-based code for astrophysical magnetohydrodynamics (MHD). It was developed primarily for studies of the interstellar medium, star formation, and accretion flows.

atk

Homepage:
Spack package:
Versions:
2.36.0, 2.30.0, 2.28.1, 2.20.0, 2.14.0
Build Dependencies:
meson, glib, gettext, pkgconfig, gobject-introspection, libffi
Link Dependencies:
glib, gettext, gobject-introspection, libffi
Description:
ATK provides the set of accessibility interfaces that are implemented by other toolkits and applications. Using the ATK interfaces, accessibility tools have full access to view and control running applications.

atlas

Homepage:
Spack package:
Versions:
3.11.41, 3.11.39, 3.11.34, 3.10.3, 3.10.2
Description:
Automatically Tuned Linear Algebra Software, generic shared ATLAS is an approach for the automatic generation and optimization of numerical software. Currently ATLAS supplies optimized versions for the complete set of linear algebra kernels known as the Basic Linear Algebra Subroutines (BLAS), and a subset of the linear algebra routines in the LAPACK library.

atmi

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, rsync
Link Dependencies:
rsync, comgr, hsa-rocr-dev, elf
Description:
Asynchronous Task and Memory Interface, or ATMI, is a runtime framework and programming model for heterogeneous CPU-GPU systems. It provides a consistent, declarative API to create task graphs on CPUs and GPUs (integrated and discrete).

atom-dft

Homepage:
Spack package:
Versions:
4.2.6
Build Dependencies:
libgridxc, xmlf90
Link Dependencies:
libgridxc, xmlf90
Description:
ATOM is a program for DFT calculations in atoms and pseudopotential generation.

atompaw

Homepage:
Spack package:
Versions:
4.2.0.0, 4.1.1.0, 4.0.0.13, 3.1.0.3
Build Dependencies:
gnuconfig, lapack, blas, libxc
Link Dependencies:
lapack, blas, libxc
Description:
A Projector Augmented Wave (PAW) code for generating atom-centered functions. Official website: http://pwpaw.wfu.edu User's guide: ~/doc/atompaw-usersguide.pdf

atop

Homepage:
Spack package:
Versions:
2.5.0, 2.4.0, 2.3.0, 2.2.6, 2.2-3
Build Dependencies:
zlib, ncurses
Link Dependencies:
zlib, ncurses
Description:
Atop is an ASCII full-screen performance monitor for Linux

attr

Homepage:
Spack package:
Versions:
2.4.48, 2.4.47, 2.4.46
Build Dependencies:
gnuconfig
Description:
Commands for Manipulating Filesystem Extended Attributes

audacious

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, 4.0, 3.10.1, 3.10
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, gettext, glib, qt
Link Dependencies:
gettext, iconv, glib, qt
Description:
A lightweight and versatile audio player.

audacity

Homepage:
Spack package:
Versions:
2.4.2, 2.4.1, 2.4.0
Build Dependencies:
cmake, wxwidgets
Link Dependencies:
wxwidgets
Description:
Audacity is a cross-platform multitrack audio editor. It allows you to record sounds directly or to import files in various formats. It features a few simple effects, all of the editing features you should need, and unlimited undo. The GUI was built with wxWidgets and the audio I/O supports PulseAudio, OSS and ALSA under Linux.

audit-userspace

Homepage:
Spack package:
Versions:
2.8.5, 2.8.4, 2.8.3, 2.8.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, openldap, swig
Link Dependencies:
openldap, swig
Description:
Linux audit userspace

augustus

Homepage:
Spack package:
Versions:
3.4.0, 3.3.2, 3.3.1-tag1, 3.3, 3.2.3
Build Dependencies:
perl, python, bamtools, gsl, boost, zlib, htslib, bcftools, samtools, ncurses, curl, sqlite, mysql-client, mysqlpp, lp-solve, suite-sparse
Link Dependencies:
bamtools, gsl, boost, zlib, htslib, bcftools, samtools, ncurses, curl, sqlite, mysql-client, mysqlpp, lp-solve, suite-sparse
Run Dependencies:
perl, python
Description:
AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences

authd

Homepage:
Spack package:
Versions:
1.4.4
Description:
authd is a small and fast RFC 1413 ident protocol daemon with both xinetd server and interactive modes that supports IPv6 and IPv4 as well as the more popular features of pidentd.

authselect

Homepage:
Spack package:
Versions:
1.2.1, 1.2, 1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, popt
Link Dependencies:
popt
Description:
Select authentication and indentity profile to use on the system.

autoconf

Homepage:
Spack package:
Versions:
2.71, 2.70, 2.69, 2.62, 2.59
Build Dependencies:
gnuconfig, m4, perl
Run Dependencies:
m4, perl
Description:
Autoconf -- system configuration part of autotools

autoconf-archive

Homepage:
Spack package:
Versions:
2022.02.11, 2019.01.06
Build Dependencies:
gnuconfig
Description:
The GNU Autoconf Archive is a collection of more than 500 macros for GNU Autoconf.

autodiff

Homepage:
Spack package:
Versions:
0.6.4, 0.5.13
Build Dependencies:
cmake, eigen, py-pybind11
Link Dependencies:
eigen
Run Dependencies:
py-pybind11
Description:
autodiff is automatic differentiation made easier for C++.

autodock-gpu

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
AutoDock-GPU: AutoDock for GPUs and other accelerators. OpenCL and Cuda accelerated version of AutoDock 4.2.6. It leverages its embarrasingly parallelizable LGA by processing ligand-receptor poses in parallel over multiple compute units.

autodock-vina

Homepage:
Spack package:
Versions:
1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.2
Build Dependencies:
boost
Link Dependencies:
boost
Description:
AutoDock Vina is an open-source program for doing molecular docking

autofact

Homepage:
Spack package:
Versions:
3_4
Run Dependencies:
perl, perl-bioperl, perl-io-string, perl-libwww-perl, blast-legacy
Description:
An Automatic Functional Annotation and Classification Tool

autogen

Homepage:
Spack package:
Versions:
5.18.12
Build Dependencies:
gnuconfig, pkgconfig, guile, libxml2
Link Dependencies:
guile, libxml2
Description:
AutoGen is a tool designed to simplify the creation and maintenance of programs that contain large amounts of repetitious text. It is especially valuable in programs that have several blocks of text that must be kept synchronized.

automaded

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, mpi, boost, callpath
Link Dependencies:
mpi, boost, callpath
Description:
AutomaDeD (Automata-based Debugging for Dissimilar parallel tasks) is a tool for automatic diagnosis of performance and correctness problems in MPI applications. It creates control-flow models of each MPI process and, when a failure occurs, these models are leveraged to find the origin of problems automatically. MPI calls are intercepted (using wrappers) to create the models. When an MPI application hangs, AutomaDeD creates a progress-dependence graph that helps finding the process (or group of processes) that caused the hang.

automake

Homepage:
Spack package:
Versions:
1.16.5, 1.16.3, 1.16.2, 1.16.1, 1.15.1, 1.15, 1.14.1, 1.13.4, 1.11.6
Build Dependencies:
gnuconfig, autoconf, perl
Run Dependencies:
perl
Description:
Automake -- make file builder part of autotools

avizo

Homepage:
Spack package:
Versions:
2020.1, 2019.4, 2019.3, 9.7.0
Description:
Avizo is a 3D analysis software for scientific and industrial data. Wherever three-dimensional imaging data sets need to be processed, in materials science, geosciences or engineering applications, Avizo offers abundant state-of-the-art image data processing, exploration and analysis features within an intuitive workflow and easy-to-use graphical user interface.

aws-parallelcluster

Homepage:
Spack package:
Versions:
2.11.7, 2.11.6, 2.11.5, 2.11.4, 2.11.3, 2.11.2, 2.11.1, 2.11.0, 2.10.4, 2.10.3, 2.10.2, 2.10.1, 2.10.0, 2.9.1, 2.9.0, 2.8.1, 2.8.0, 2.7.0, 2.6.1, 2.6.0, 2.5.1, 2.5.0
Build Dependencies:
python, py-pip, py-wheel, py-future, py-ipaddress, py-configparser, py-tabulate, py-pyyaml, py-jinja2, py-boto3, py-setuptools, py-enum34
Run Dependencies:
python, py-future, py-ipaddress, py-configparser, py-tabulate, py-pyyaml, py-jinja2, py-boto3, py-setuptools, py-enum34
Description:
AWS ParallelCluster is an AWS supported Open Source cluster management tool to deploy and manage HPC clusters in the AWS cloud.

awscli

Homepage:
Spack package:
Versions:
1.16.308, 1.16.179
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-botocore, py-docutils, py-rsa, py-s3transfer, py-argparse, py-pyyaml, py-colorama
Run Dependencies:
python, py-botocore, py-docutils, py-rsa, py-s3transfer, py-argparse, py-pyyaml, py-colorama
Test Dependencies:
py-nose, py-mock
Description:
This package provides a unified command line interface to Amazon Web Services

axel

Homepage:
Spack package:
Versions:
2.17.10, 2.16.1
Build Dependencies:
gnuconfig, pkgconfig, gettext, openssl
Link Dependencies:
gettext, openssl
Description:
Axel is a light command line download accelerator for Linux and Unix

axl

Homepage:
Spack package:
Versions:
main, 0.5.0, 0.4.0, 0.3.0, 0.2.0, 0.1.1
Build Dependencies:
cmake, kvtree
Link Dependencies:
kvtree, zlib
Description:
Asynchronous transfer library

axom

Homepage:
Spack package:
Versions:
develop, main, 0.6.1, 0.6.0, 0.5.0, 0.4.0, 0.3.3, 0.3.2, 0.3.1, 0.3.0, 0.2.9
Build Dependencies:
cuda, cmake, mpi, conduit, lua, scr, kvtree, dtcmp, umpire, raja, mfem, python, cppcheck, doxygen, graphviz, py-sphinx, py-shroud, llvm
Link Dependencies:
cuda, mpi, conduit, lua, scr, kvtree, dtcmp, umpire, raja, mfem, python, cppcheck, doxygen, graphviz, py-sphinx, py-shroud
Description:
Axom provides a robust, flexible software infrastructure for the development of multi-physics applications and computational tools.

babelflow

Homepage:
Spack package:
Versions:
1.1.0, 1.0.1, 1.0.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
BabelFlow is an Embedded Domain Specific Language to describe algorithms using a task graph abstraction which allows them to be executed on top of one of several available runtime systems.

babeltrace

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
gnuconfig, glib, uuid, popt
Link Dependencies:
glib, uuid, popt
Description:
Babeltrace is a trace viewer and converter reading and writing the Common Trace Format (CTF). Its main use is to pretty-print CTF traces into a human-readable text output ordered by time.

bacio

Homepage:
Spack package:
Versions:
2.5.0, 2.4.1
Build Dependencies:
cmake
Description:
The bacio ibrary performs binary I/O for the NCEP models, processing unformatted byte-addressable data records, and transforming the little endian files and big endian files.

backupninja

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, bash, gawk
Description:
Backupninja backup tool.

bam-readcount

Homepage:
Spack package:
Versions:
0.8.0
Build Dependencies:
cmake
Description:
Bam-readcount generates metrics at single nucleotide positions.

bamaddrg

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
bamtools
Description:
bamaddrg adds read groups to input BAM files, streams BAM output on stdout

bamdst

Homepage:
Spack package:
Versions:
master
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Bamdst is a a lightweight bam file depth statistical tool.

bamtools

Homepage:
Spack package:
Versions:
2.5.2, 2.5.1, 2.5.0, 2.4.1, 2.4.0, 2.3.0, 2.2.3
Build Dependencies:
cmake, jsoncpp
Link Dependencies:
zlib, jsoncpp
Description:
C++ API & command-line toolkit for working with BAM data.

bamutil

Homepage:
Spack package:
Versions:
1.0.15, 1.0.13
Build Dependencies:
zlib, git
Link Dependencies:
zlib
Description:
bamUtil is a repository that contains several programs that perform operations on SAM/BAM files. All of these programs are built into a single executable, bam.

bannergrab

Homepage:
Spack package:
Versions:
master
Description:
Bannergrab is a simple tool, designed to collect information from network services. It can do this using two different methods; grab the connection banners and send triggers and collect the responses. Bannergrab defaults to sending triggers.

barrnap

Homepage:
Spack package:
Versions:
0.8, 0.7, 0.6
Run Dependencies:
hmmer
Description:
Barrnap predicts the location of ribosomal RNA genes in genomes.

bart

Homepage:
Spack package:
Versions:
0.7.00, 0.6.00, 0.5.00
Build Dependencies:
cuda, libpng, fftw, blas, lapack, python
Link Dependencies:
cuda, libpng, fftw, blas, lapack
Run Dependencies:
py-numpy, py-matplotlib, python
Description:
BART: Toolbox for Computational Magnetic Resonance Imaging

barvinok

Homepage:
Spack package:
Versions:
0.41.5
Build Dependencies:
gnuconfig, gmp, ntl, llvm, libyaml
Link Dependencies:
gmp, ntl, llvm, libyaml
Description:
barvinok is a library for counting the number of integer points in parametric and non-parametric polytopes.

bash

Homepage:
Spack package:
Versions:
5.1, 5.0, 4.4, 4.3
Build Dependencies:
gnuconfig, ncurses, readline, iconv
Link Dependencies:
ncurses, readline, iconv
Description:
The GNU Project's Bourne Again SHell.

bash-completion

Homepage:
Spack package:
Versions:
develop, 2.7, 2.3
Build Dependencies:
gnuconfig, automake, autoconf, libtool
Run Dependencies:
bash
Description:
Programmable completion functions for bash.

bashtop

Homepage:
Spack package:
Versions:
0.8.17, 0.8.16, 0.8.15, 0.8.14, 0.8.13, 0.8.12, 0.8.11, 0.8.10, 0.8.9, 0.8.8
Description:
Linux resource monitor.

bat

Homepage:
Spack package:
Versions:
0.13.0, 0.12.1
Build Dependencies:
rust
Link Dependencies:
rust
Description:
A cat(1) clone with wings.

batchedblas

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
blas
Link Dependencies:
blas
Description:
Batched BLAS is one of the new approaches for a task-based BLAS invocation, and it is defined as a new interface that allows users to execute multiple independent BLAS operations as a single subroutine call

batctl

Homepage:
Spack package:
Versions:
2019.5, 2019.4, 2019.3, 2019.2
Build Dependencies:
libnl
Link Dependencies:
libnl
Description:
B.A.T.M.A.N. advanced control and management tool

bats

Homepage:
Spack package:
Versions:
0.4.0
Description:
Bats is a TAP-compliant testing framework for Bash.

baurmc

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig
Description:
Baur's Monte Carlo package for simulating W+ gamma production at hadron colliders provides full electroweak calculation upto O(alpha) and contains higher order QCD corrections as well.

bazel

Homepage:
Spack package:
Versions:
4.0.0, 3.7.2, 3.7.1, 3.7.0, 3.6.0, 3.5.1, 3.5.0, 3.4.1, 3.4.0, 3.3.1, 3.3.0, 3.2.0, 3.1.0, 3.0.0, 2.2.0, 2.1.1, 2.1.0, 2.0.1, 2.0.0, 1.2.1, 1.2.0, 1.1.0, 1.0.1, 1.0.0, 0.29.1, 0.29.0, 0.28.1, 0.28.0, 0.27.2, 0.27.1, 0.27.0, 0.26.1, 0.26.0, 0.25.3, 0.25.2, 0.25.1, 0.25.0, 0.24.1, 0.24.0, 0.23.2, 0.23.1, 0.23.0, 0.22.0, 0.21.0, 0.20.0, 0.19.2, 0.19.1, 0.19.0, 0.18.1, 0.18.0, 0.17.2, 0.17.1, 0.16.1, 0.16.0, 0.15.2, 0.15.1, 0.15.0, 0.14.1, 0.14.0, 0.13.1, 0.13.0, 0.12.0, 0.11.1, 0.11.0, 0.10.1, 0.10.0, 0.9.0, 0.8.1, 0.8.0, 0.7.0, 0.6.1, 0.6.0, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.5, 0.4.4, 0.4.3, 0.4.2, 0.4.1, 0.4.0, 0.3.2, 0.3.1, 0.3.0, 0.2.0, 0.1.4, 0.1.1
Build Dependencies:
java, python, zip
Run Dependencies:
java, python, zip
Description:
Bazel is an open-source build and test tool similar to Make, Maven, and Gradle. It uses a human-readable, high-level build language. Bazel supports projects in multiple languages and builds outputs for multiple platforms. Bazel supports large codebases across multiple repositories, and large numbers of users.

bbcp

Homepage:
Spack package:
Versions:
master
Build Dependencies:
zlib, openssl, libnsl
Link Dependencies:
zlib, openssl, libnsl
Description:
Securely and quickly copy data from source to target

bbmap

Homepage:
Spack package:
Versions:
38.63, 37.36
Build Dependencies:
java
Link Dependencies:
java
Description:
Short read aligner for DNA and RNA-seq data.

bc

Homepage:
Spack package:
Versions:
1.07
Build Dependencies:
gnuconfig, ed, texinfo
Description:
bc is an arbitrary precision numeric processing language. Syntax is similar to C, but differs in many substantial areas. It supports interactive execution of statements.

bcache

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6, 1.0.5, 1.0.4
Build Dependencies:
uuid, util-linux, gettext, pkgconfig
Link Dependencies:
uuid, util-linux, gettext
Description:
Bcache is a patch for the Linux kernel to use SSDs to cache other block devices.

bcftools

Homepage:
Spack package:
Versions:
1.14, 1.13, 1.12, 1.10.2, 1.9, 1.8, 1.7, 1.6, 1.4, 1.3.1, 1.2
Build Dependencies:
gnuconfig, gsl, perl, htslib
Link Dependencies:
gsl, htslib
Run Dependencies:
py-matplotlib, perl
Description:
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF- compressed.

bcl2fastq2

Homepage:
Spack package:
Versions:
2.20.0.422, 2.19.1.403
Build Dependencies:
boost, cmake, libxml2, libxslt, libgcrypt, zlib
Link Dependencies:
boost, libxml2, libxslt, libgcrypt, zlib
Description:
The bcl2fastq2 Conversion Software converts base call (BCL) files from a sequencing run into FASTQ files.

bdftopcf

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libxfont, pkgconfig, xproto, fontsproto, util-macros
Link Dependencies:
libxfont, xproto, fontsproto
Description:
bdftopcf is a font compiler for the X server and font server. Fonts in Portable Compiled Format can be read by any architecture, although the file is structured to allow one particular architecture to read them directly without reformatting. This allows fast reading on the appropriate machine, but the files are still portable (but read more slowly) on other machines.

bdii

Homepage:
Spack package:
Versions:
5.2.25, 5.2.24
Run Dependencies:
openldap
Description:
The Berkeley Database Information Index (BDII) consists of a standard LDAP database which is updated by an external process. The update process obtains LDIF from a number of sources and merges them. It then compares this to the contents of the database and creates an LDIF file of the differences. This is then used to update the database.

bdw-gc

Homepage:
Spack package:
Versions:
8.0.6, 8.0.0, 7.6.0, 7.4.4
Build Dependencies:
gnuconfig, libatomic-ops
Link Dependencies:
libatomic-ops
Description:
The Boehm-Demers-Weiser conservative garbage collector is a garbage collecting replacement for C malloc or C++ new.

beagle

Homepage:
Spack package:
Versions:
5.4, 5.1, 5.0, 4.1
Run Dependencies:
java
Description:
Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.

beakerlib

Homepage:
Spack package:
Versions:
1.20, 1.19, 1.18.1
Description:
BeakerLib is a shell-level integration testing library, providing convenience functions which simplify writing, running and analysis of integration and blackbox tests.

bear

Homepage:
Spack package:
Versions:
2.2.0, 2.0.4
Build Dependencies:
cmake, python
Link Dependencies:
python
Description:
Bear is a tool that generates a compilation database for clang tooling from non-cmake build systems.

beast-tracer

Homepage:
Spack package:
Versions:
1.7.1
Build Dependencies:
ant, java
Run Dependencies:
java
Description:
Tracer is a graphical tool for visualization and diagnostics of MCMC output.

beast1

Homepage:
Spack package:
Versions:
1.10.4, 1.8.4
Build Dependencies:
libbeagle
Link Dependencies:
libbeagle
Run Dependencies:
java, libbeagle
Description:
BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC.

beast2

Homepage:
Spack package:
Versions:
2.6.4, 2.6.3, 2.5.2, 2.4.6
Build Dependencies:
java
Link Dependencies:
java
Description:
BEAST is a cross-platform program for Bayesian inference using MCMC of molecular sequences. It is entirely orientated towards rooted, time- measured phylogenies inferred using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology.

bedops

Homepage:
Spack package:
Versions:
2.4.40, 2.4.39, 2.4.35, 2.4.34, 2.4.30
Description:
BEDOPS is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale.

bedtools2

Homepage:
Spack package:
Versions:
2.30.0, 2.29.2, 2.27.1, 2.27.0, 2.26.0, 2.25.0, 2.23.0
Build Dependencies:
zlib, bzip2, xz, python
Link Dependencies:
zlib, bzip2, xz
Description:
Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.

beforelight

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, libxscrnsaver, libxt, pkgconfig, util-macros
Link Dependencies:
libx11, libxscrnsaver, libxt
Description:
The beforelight program is a sample implementation of a screen saver for X servers supporting the MIT-SCREEN-SAVER extension. It is only recommended for use as a code sample, as it does not include features such as screen locking or configurability.

benchmark

Homepage:
Spack package:
Versions:
develop, 1.6.0, 1.5.5, 1.5.4, 1.5.0, 1.4.1, 1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.0
Build Dependencies:
cmake
Description:
A microbenchmark support library

berkeley-db

Homepage:
Spack package:
Versions:
18.1.40, 18.1.32, 6.2.32, 6.1.29, 6.0.35, 5.3.28
Build Dependencies:
gnuconfig
Description:
Oracle Berkeley DB

berkeleygw

Homepage:
Spack package:
Versions:
3.0.1, 3.0, 2.1
Build Dependencies:
blas, lapack, scalapack, mpi, hdf5, elpa, fftw-api, python, py-numpy, py-setuptools, py-h5py, fftw, amdfftw, openblas, amdblis
Link Dependencies:
blas, lapack, scalapack, mpi, hdf5, elpa, fftw-api, fftw, amdfftw, openblas, amdblis
Run Dependencies:
python, py-numpy, py-setuptools, py-h5py
Test Dependencies:
perl
Description:
BerkeleyGW is a many-body perturbation theory code for excited states, using the GW method and the GW plus Bethe-Salpeter equation (GW-BSE) method to solve respectively for quasiparticle excitations and optical properties of materials.

bertini

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
gnuconfig, flex, bison, gmp, mpfr, mpi
Link Dependencies:
gmp, mpfr, mpi
Description:
Bertini is a general-purpose solver, written in C, that was created for research about polynomial continuation. It solves for the numerical solution of systems of polynomial equations using homotopy continuation.

bgpdump

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, bzip2
Link Dependencies:
bzip2
Description:
Utility and C Library for parsing MRT files

bib2xhtml

Homepage:
Spack package:
Versions:
3.0-79-ge935
Run Dependencies:
texlive
Description:
bib2xhtml is a program that converts BibTeX files into HTML.

bigdft-atlab

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3
Build Dependencies:
gnuconfig, mpi, openbabel, bigdft-futile
Link Dependencies:
mpi, openbabel, bigdft-futile
Description:
BigDFT-atlab: library for ATomic related operations.

bigdft-chess

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
cuda, gnuconfig, python, blas, lapack, py-pyyaml, mpi, scalapack, ntpoly, bigdft-futile, bigdft-atlab
Link Dependencies:
cuda, blas, lapack, py-pyyaml, mpi, scalapack, ntpoly, bigdft-futile, bigdft-atlab
Run Dependencies:
python
Description:
BigDFT-CheSS: A module for performing Fermi Operator Expansions via Chebyshev Polynomials.

bigdft-core

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
cuda, gnuconfig, python, blas, lapack, py-pyyaml, libgain, mpi, scalapack, openbabel, libxc, bigdft-futile, bigdft-chess, bigdft-psolver, bigdft-libabinit
Link Dependencies:
cuda, blas, lapack, py-pyyaml, libgain, mpi, scalapack, openbabel, libxc, bigdft-futile, bigdft-chess, bigdft-psolver, bigdft-libabinit
Run Dependencies:
python
Description:
BigDFT-core: the core components of BigDFT, an electronic structure calculation based on Daubechies wavelets.

bigdft-futile

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
cuda, gnuconfig, python, blas, lapack, libyaml, py-pyyaml, mpi
Link Dependencies:
cuda, blas, lapack, libyaml, py-pyyaml, mpi
Run Dependencies:
python
Description:
BigDFT-futile: a library handling most common FORTRAN low-level operations, like memory managment, profiling routines, I/O operations. It also supports yaml output and parsing for fortran programs. It also provides wrappers routines to MPI and linear algebra operations. This library is intensively used in BigDFT packages.

bigdft-libabinit

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
gnuconfig, python, mpi, libxc, bigdft-futile
Link Dependencies:
mpi, libxc, bigdft-futile
Run Dependencies:
python
Description:
BigDFT-libABINIT: this is a subsection of files coming from ABINIT software package, to which BigDFT has been coupled since the early days. It handles different parts like symmetries, ewald corrections, PAW routines, density and potential mixing routines and some MD minimizers.

bigdft-psolver

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
cuda, gnuconfig, python, blas, lapack, py-pyyaml, mpi, scalapack, bigdft-futile, bigdft-atlab
Link Dependencies:
cuda, blas, lapack, py-pyyaml, mpi, scalapack, bigdft-futile, bigdft-atlab
Run Dependencies:
python
Description:
BigDFT-Psolver: a flexible real-space Poisson Solver based on Interpolating Scaling Functions. It constitutes a fundamental building block of BigDFT code, and it can also be used separately and linked to other codes.

bigdft-spred

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
gnuconfig, python, blas, lapack, py-pyyaml, mpi, scalapack, bigdft-futile, bigdft-psolver, bigdft-core
Link Dependencies:
blas, lapack, py-pyyaml, mpi, scalapack, bigdft-futile, bigdft-psolver, bigdft-core
Run Dependencies:
python
Description:
BigDFT-spred: a library for structure prediction tools, that is compiled on top of BigDFT routines.

bigdft-suite

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2, 1.8.1
Build Dependencies:
bigdft-futile, bigdft-psolver, bigdft-libabinit, bigdft-chess, bigdft-core, bigdft-spred, bigdft-atlab, py-bigdft
Link Dependencies:
bigdft-futile, bigdft-psolver, bigdft-libabinit, bigdft-chess, bigdft-core, bigdft-spred, bigdft-atlab, py-bigdft
Run Dependencies:
python
Description:
BigDFT-suite: the complete suite of BigDFT for electronic structure calculation based on Daubechies wavelets.

bigreqsproto

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Big Requests Extension. This extension defines a protocol to enable the use of requests that exceed 262140 bytes in length.

bind9

Homepage:
Spack package:
Versions:
9_14_6
Build Dependencies:
gnuconfig, pkgconfig
Link Dependencies:
libuv, openssl, libiconv
Description:
BIND 9 has evolved to be a very flexible, full-featured DNS system.

binutils

Homepage:
Spack package:
Versions:
2.38, 2.37, 2.36.1, 2.35.2, 2.35.1, 2.35, 2.34, 2.33.1, 2.32, 2.31.1, 2.29.1, 2.28, 2.27, 2.26, 2.25.1, 2.25, 2.24, 2.23.2, 2.20.1
Build Dependencies:
gnuconfig, zlib, diffutils, gettext, m4, bison, texinfo
Link Dependencies:
zlib, gettext
Description:
GNU binutils, which contain the linker, assembler, objdump and others

bioawk

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
zlib, bison
Link Dependencies:
zlib
Description:
Bioawk is an extension to Brian Kernighan's awk, adding the support of several common biological data formats, including optionally gzip'ed BED, GFF, SAM, VCF, FASTA/Q and TAB-delimited formats with column names.

biobambam2

Homepage:
Spack package:
Versions:
2.0.177
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libmaus2
Link Dependencies:
libmaus2
Description:
Tools for early stage alignment file processing

biobloom

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
gnuconfig, boost, sdsl-lite, sparsehash, zlib
Link Dependencies:
boost, sdsl-lite, sparsehash, zlib
Description:
BioBloom Tools (BBT) provides the means to create filters for a given reference and then to categorize sequences.

bird

Homepage:
Spack package:
Versions:
2.0.2, 2.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, flex, bison, ncurses, readline
Link Dependencies:
ncurses, readline
Description:
The BIRD project aims to develop a dynamic IP routing daemon with full support of all modern routing protocols, easy to use configuration interface and powerful route filtering language, primarily targeted on (but not limited to) Linux and other UNIX-like systems and distributed under the GNU General Public License.

bismark

Homepage:
Spack package:
Versions:
0.23.0, 0.19.0, 0.18.2
Run Dependencies:
bowtie2, perl, samtools
Description:
A tool to map bisulfite converted sequence reads and determine cytosine methylation states

bison

Homepage:
Spack package:
Versions:
3.8.2, 3.8.1, 3.8, 3.7.6, 3.7.5, 3.7.4, 3.7.3, 3.7.2, 3.7.1, 3.7, 3.6.4, 3.6.3, 3.6.2, 3.6.1, 3.6, 3.5.3, 3.5.2, 3.5.1, 3.5, 3.4.2, 3.4.1, 3.3.2, 3.0.5, 3.0.4, 2.7
Build Dependencies:
gnuconfig, diffutils, m4, perl
Run Dependencies:
m4
Description:
Bison is a general-purpose parser generator that converts an annotated context-free grammar into a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.

bitlbee

Homepage:
Spack package:
Versions:
3.6-1, 3.6, 3.5-2
Build Dependencies:
gnuconfig, glib, gnutls, libgcrypt
Link Dependencies:
glib, gnutls, libgcrypt
Description:
An IRC to other chat networks gateway.

bitmap

Homepage:
Spack package:
Versions:
1.0.8
Build Dependencies:
gnuconfig, libx11, libxmu, libxaw, libxt, xbitmaps, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, libxaw, libxt, xbitmaps, xproto
Description:
bitmap, bmtoa, atobm - X bitmap (XBM) editor and converter utilities.

bitsery

Homepage:
Spack package:
Versions:
5.1.0
Build Dependencies:
cmake
Description:
Header only C++ binary serialization library. It is designed around the networking requirements for real-time data delivery, especially for games.

blackhat

Homepage:
Spack package:
Versions:
0.9.9
Build Dependencies:
gnuconfig, qd, python
Link Dependencies:
qd, python
Run Dependencies:
python
Description:
Blackhat MC generator

blaspp

Homepage:
Spack package:
Versions:
master, 2021.04.01, 2020.10.02, 2020.10.01, 2020.10.00
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blas, llvm-openmp, rocblas
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, blas, llvm-openmp, rocblas
Description:
C++ API for the Basic Linear Algebra Subroutines. Developed by the Innovative Computing Laboratory at the University of Tennessee, Knoxville.

blasr

Homepage:
Spack package:
Versions:
5.3.1
Build Dependencies:
ncurses, hdf5, htslib, zlib, boost, pbbam, blasr-libcpp, python
Link Dependencies:
ncurses, hdf5, htslib, zlib, boost, pbbam, blasr-libcpp
Description:
The PacBio long read aligner.

blasr-libcpp

Homepage:
Spack package:
Versions:
5.3.1
Build Dependencies:
pbbam, hdf5, python
Link Dependencies:
pbbam, hdf5
Description:
Blasr_libcpp is a library used by blasr and other executables such as samtoh5, loadPulses for analyzing PacBio sequences.

blast-legacy

Homepage:
Spack package:
Versions:
2.2.26
Build Dependencies:
tcsh
Description:
Legacy NCBI BLAST distribution -- no longer supported. Contains older programs including `blastall'

blast-plus

Homepage:
Spack package:
Versions:
2.12.0, 2.11.0, 2.9.0, 2.8.1, 2.7.1, 2.6.0, 2.2.30
Build Dependencies:
gnuconfig, jpeg, libpng, freetype, gnutls, openssl, zlib, bzip2, lzo, pcre, python, perl, lmdb
Link Dependencies:
jpeg, libpng, freetype, gnutls, openssl, zlib, bzip2, lzo, pcre, python, perl, lmdb
Description:
Basic Local Alignment Search Tool.

blast2go

Homepage:
Spack package:
Versions:
5.2.5
Build Dependencies:
bash, java
Run Dependencies:
blast-plus
Description:
Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets.

blat

Homepage:
Spack package:
Versions:
37, 35
Build Dependencies:
libpng, libuuid, mysql-client
Link Dependencies:
libpng, libuuid, mysql-client
Description:
BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm.

blaze

Homepage:
Spack package:
Versions:
master, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.6, 2.5, 2.4, 2.3, 2.2, 2.1, 2.0, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Build Dependencies:
cmake, blas, lapack, boost, hpx
Link Dependencies:
blas, lapack, boost, hpx
Description:
Blaze is an open-source, high-performance C++ math library for dense and sparse arithmetic. With its state-of-the-art Smart Expression Template implementation Blaze combines the elegance and ease of use of a domain- specific language with HPC-grade performance, making it one of the most intuitive and fastest C++ math libraries available.

blis

Homepage:
Spack package:
Versions:
master, 0.9.0, 0.8.1, 0.8.0, 0.7.0, 0.6.1, 0.6.0, 0.5.0, 0.4.0, 0.3.2, 0.3.1, 0.3.0, 0.2.2
Build Dependencies:
python
Run Dependencies:
python
Description:
BLIS is a portable software framework for instantiating high-performance BLAS-like dense linear algebra libraries. The framework was designed to isolate essential kernels of computation that, when optimized, immediately enable optimized implementations of most of its commonly used and computationally intensive operations. BLIS is written in ISO C99 and available under a new/modified/3-clause BSD license. While BLIS exports a new BLAS-like API, it also includes a BLAS compatibility layer which gives application developers access to BLIS implementations via traditional BLAS routine calls. An object-based API unique to BLIS is also available.

bliss

Homepage:
Spack package:
Versions:
0.73
Build Dependencies:
gmp, libtool
Link Dependencies:
gmp
Description:
bliss: A Tool for Computing Automorphism Groups and Canonical Labelings of Graphs

blitz

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1, 1.0.0
Build Dependencies:
gnuconfig, python
Description:
N-dimensional arrays for C++

blktrace

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.5, 1.0.4, 1.0.3, 1.0.2
Build Dependencies:
libaio
Link Dependencies:
libaio
Description:
blktrace is a block layer IO tracing mechanism which provides detailed information about request queue operations up to user space. There are three major components: a kernel component, a utility to record the i/o trace information for the kernel to user space, and utilities to analyse and view the trace information.

bloaty

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
cmake
Description:
Bloaty McBloatface: a size profiler for binaries.

blogbench

Homepage:
Spack package:
Versions:
1.1, 1.0
Build Dependencies:
gnuconfig
Description:
A filesystem benchmark tool that simulates a realistic load.

blt

Homepage:
Spack package:
Versions:
develop, main, 0.5.1, 0.5.0, 0.4.1, 0.4.0, 0.3.6, 0.3.5, 0.3.0, 0.2.5, 0.2.0
Run Dependencies:
cmake
Description:
BLT is a streamlined CMake-based foundation for Building, Linking and Testing large-scale high performance computing (HPC) applications.

bmake

Homepage:
Spack package:
Versions:
20220330, 20200710, 20180512, 20171207
Description:
Portable version of NetBSD make(1).

bmi

Homepage:
Spack package:
Versions:
main, 2.8.1
Build Dependencies:
gnuconfig, autoconf, automake
Description:
a communications framework and network abstraction layer

bml

Homepage:
Spack package:
Versions:
develop, 1.3.1, 1.3.0, 1.2.3, 1.2.2, 1.1.0
Build Dependencies:
cmake, blas, lapack, mpi, python
Link Dependencies:
blas, lapack, mpi
Description:
The basic matrix library (bml) is a collection of various matrix data formats (in dense and sparse) and their associated algorithms for basic matrix operations.

bohrium

Homepage:
Spack package:
Versions:
develop, 0.9.1, 0.9.0
Build Dependencies:
cuda, cmake, python, boost, opencl, netlib-lapack, blas, opencv, py-numpy, swig, py-cython, py-virtualenv, py-pip, py-wheel, zlib, libsigsegv
Link Dependencies:
cuda, python, boost, opencl, netlib-lapack, blas, opencv, zlib, libsigsegv
Run Dependencies:
python, py-numpy
Test Dependencies:
python, py-numpy
Description:
Library for automatic acceleration of array operations

boinc-client

Homepage:
Spack package:
Versions:
7.16.5
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, curl, openssl, freeglut, libsm, libice, libxmu, libxi, libx11, libjpeg, wxwidgets, libnotify, sqlite
Link Dependencies:
curl, openssl, freeglut, libsm, libice, libxmu, libxi, libx11, libjpeg, wxwidgets, libnotify, sqlite
Description:
BOINC is a platform for high-throughput computing on a large scale (thousands or millions of computers). It can be used for volunteer computing (using consumer devices) or grid computing (using organizational resources). It supports virtualized, parallel, and GPU- based applications.

bolt

Homepage:
Spack package:
Versions:
main, 2.0, 1.0.1, 1.0
Build Dependencies:
cmake, argobots, autoconf, automake, libtool
Link Dependencies:
argobots
Description:
BOLT targets a high-performing OpenMP implementation, especially specialized for fine-grain parallelism. Unlike other OpenMP implementations, BOLT utilizes a lightweight threading model for its underlying threading mechanism. It currently adopts Argobots, a new holistic, low-level threading and tasking runtime, in order to overcome shortcomings of conventional OS-level threads. The current BOLT implementation is based on the OpenMP runtime in LLVM, and thus it can be used with LLVM/Clang, Intel OpenMP compiler, and GCC.

bonniepp

Homepage:
Spack package:
Versions:
1.98
Build Dependencies:
gnuconfig
Description:
Bonnie++ is a benchmark suite that is aimed at performing a number of simple tests of hard drive and file system performance.

bookleaf-cpp

Homepage:
Spack package:
Versions:
develop, 2.0.2, 2.0.1, 2.0
Build Dependencies:
cmake, caliper, parmetis, silo, typhon, mpi, yaml-cpp
Link Dependencies:
caliper, parmetis, silo, typhon, mpi, yaml-cpp
Description:
BookLeaf is a 2D unstructured hydrodynamics mini-app.

boost

Homepage:
Spack package:
Versions:
develop, 1.79.0, 1.78.0, 1.77.0, 1.76.0, 1.75.0, 1.74.0, 1.73.0, 1.72.0, 1.71.0, 1.70.0, 1.69.0, 1.68.0, 1.67.0, 1.66.0, 1.65.1, 1.65.0, 1.64.0, 1.63.0, 1.62.0, 1.61.0, 1.60.0, 1.59.0, 1.58.0, 1.57.0, 1.56.0, 1.55.0, 1.54.0, 1.53.0, 1.52.0, 1.51.0, 1.50.0, 1.49.0, 1.48.0, 1.47.0, 1.46.1, 1.46.0, 1.45.0, 1.44.0, 1.43.0, 1.42.0, 1.41.0, 1.40.0, 1.39.0
Build Dependencies:
icu4c, python, mpi, bzip2, zlib, py-numpy
Link Dependencies:
icu4c, python, mpi, bzip2, zlib
Run Dependencies:
py-numpy
Description:
Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library. Boost libraries are intended to be widely useful, and usable across a broad spectrum of applications. The Boost license encourages both commercial and non-commercial use.

boostmplcartesianproduct

Homepage:
Spack package:
Versions:
20161205
Description:
Cartesian_product is an extension to the Boost.MPL library and as such requires a version of the Boost libraries on your system.

botan

Homepage:
Spack package:
Versions:
2.19.1, 2.19.0, 2.18.2, 2.18.1, 2.18.0, 2.17.3, 2.17.2, 2.17.1, 2.17.0, 2.16.0, 2.15.0, 2.14.0, 2.13.0, 2.12.1, 2.12.0, 2.11.0
Build Dependencies:
python, py-sphinx
Description:
Crypto and TLS for Modern C++

bowtie

Homepage:
Spack package:
Versions:
1.3.0, 1.2.3, 1.2.2_p1, 1.2.2, 1.2.1.1, 1.2.1, 1.2.0, 1.2
Build Dependencies:
tbb, zlib
Link Dependencies:
tbb, zlib
Description:
Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.

bowtie2

Homepage:
Spack package:
Versions:
2.4.2, 2.4.1, 2.3.5.1, 2.3.5, 2.3.4.1, 2.3.1, 2.3.0, 2.2.5
Build Dependencies:
tbb, readline, zlib
Link Dependencies:
tbb, readline, zlib, simde
Run Dependencies:
perl, python
Description:
Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences

boxlib

Homepage:
Spack package:
Versions:
16.12.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
BoxLib, a software framework for massively parallel block-structured adaptive mesh refinement (AMR) codes.

bpp-core

Homepage:
Spack package:
Versions:
2.4.1, 2.2.0
Build Dependencies:
cmake
Description:
Bio++ core library.

bpp-phyl

Homepage:
Spack package:
Versions:
2.4.1, 2.2.0
Build Dependencies:
cmake, bpp-core, bpp-seq
Link Dependencies:
bpp-core, bpp-seq
Description:
Bio++ phylogeny library.

bpp-phyl-omics

Homepage:
Spack package:
Versions:
2.4.1, 2.4.0, 2.3.2, 2.3.1, 2.3.0
Build Dependencies:
cmake, bpp-core, bpp-phyl, bpp-seq, bpp-seq-omics
Link Dependencies:
bpp-core, bpp-phyl, bpp-seq, bpp-seq-omics
Description:
Bio++ Phylogenetic Omics Library

bpp-popgen

Homepage:
Spack package:
Versions:
2.4.1
Build Dependencies:
cmake, bpp-seq
Link Dependencies:
bpp-seq
Description:
The Bio++ Population Genetics Library

bpp-seq

Homepage:
Spack package:
Versions:
2.4.1, 2.2.0
Build Dependencies:
cmake, bpp-core
Link Dependencies:
bpp-core
Description:
Bio++ seq library.

bpp-seq-omics

Homepage:
Spack package:
Versions:
2.4.1, 2.4.0, 2.3.2, 2.3.1, 2.3.0
Build Dependencies:
cmake, bpp-core, bpp-seq
Link Dependencies:
bpp-core, bpp-seq
Description:
Bio++ Sequence Omics Library

bpp-suite

Homepage:
Spack package:
Versions:
2.4.1, 2.2.0
Build Dependencies:
cmake, texinfo, bpp-core, bpp-seq, bpp-phyl, bpp-popgen
Link Dependencies:
bpp-core, bpp-seq, bpp-phyl, bpp-popgen
Description:
BppSuite is a suite of ready-to-use programs for phylogenetic and sequence analysis.

bracken

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
perl, python, perl-exporter-tiny, perl-list-moreutils, perl-parallel-forkmanager
Link Dependencies:
perl, python, perl-exporter-tiny, perl-list-moreutils, perl-parallel-forkmanager
Run Dependencies:
perl, python
Description:
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

braker

Homepage:
Spack package:
Versions:
2.1.6, 2.1.4, 1.11
Build Dependencies:
perl, perl-scalar-util-numeric, perl-parallel-forkmanager, perl-file-which, perl-yaml, perl-hash-merge, perl-logger-simple, perl-file-homedir, augustus, genemark-et, bamtools, samtools, diamond
Link Dependencies:
augustus, genemark-et, bamtools, samtools, diamond
Run Dependencies:
perl, perl-scalar-util-numeric, perl-parallel-forkmanager, perl-file-which, perl-yaml, perl-hash-merge, perl-logger-simple, perl-file-homedir
Description:
BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation that combines the advantages of GeneMark-ET and AUGUSTUS

branson

Homepage:
Spack package:
Versions:
develop, 0.82, 0.81, 0.8
Build Dependencies:
cmake, mpi, boost, metis, parmetis
Link Dependencies:
mpi, boost, metis, parmetis
Description:
Branson's purpose is to study different algorithms for parallel Monte Carlo transport. Currently it contains particle passing and mesh passing methods for domain decomposition.

breakdancer

Homepage:
Spack package:
Versions:
master, 1.4.5
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib, ncurses
Run Dependencies:
perl-statistics-descriptive, perl-math-cdf, perl-gdgraph, perl-gdgraph-histogram, perl-list-moreutils, perl-exporter-tiny
Description:
BreakDancer-1.3.6, released under GPLv3, is a perl/Cpp package that provides genome-wide detection of structural variants from next generation paired-end sequencing reads. It includes two complementary programs. BreakDancerMax predicts five types of structural variants: insertions, deletions, inversions, inter- and intra-chromosomal translocations from next-generation short paired-end sequencing reads using read pairs that are mapped with unexpected separation distances or orientation. BreakDancerMini focuses on detecting small indels (usually between 10bp and 100bp) using normally mapped read pairs..

bref3

Homepage:
Spack package:
Versions:
2019-11-25, 2019-07-12, 2018-01-27
Run Dependencies:
java
Description:
Bref3: Converts from VCF format to bref3 format.

breseq

Homepage:
Spack package:
Versions:
0.33.2, 0.33.1, 0.31.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
zlib
Run Dependencies:
bedtools2, r
Description:
breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA re-sequencing data for haploid microbial-sized genomes.

bridger

Homepage:
Spack package:
Versions:
2014-12-01
Build Dependencies:
boost
Link Dependencies:
boost
Run Dependencies:
perl
Description:
Bridger : An Efficient De novo Transcriptome Assembler For RNA-Seq Data

brigand

Homepage:
Spack package:
Versions:
master, 1.3.0, 1.2.0, 1.1.0, 1.0.0
Build Dependencies:
cmake
Description:
Brigand Meta-programming library

brltty

Homepage:
Spack package:
Versions:
6.0, 5.6, 5.5, 5.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, expat
Link Dependencies:
expat, alsa-lib
Description:
BRLTTY is a background process (daemon) providing access to the Linux/Unix console (when in text mode) for a blind person using a refreshable braille display.

brotli

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
cmake
Description:
Brotli is a generic-purpose lossless compression algorithm

brpc

Homepage:
Spack package:
Versions:
0.9.7, 0.9.6, 0.9.5
Build Dependencies:
cmake, gflags, protobuf, leveldb, openssl
Link Dependencies:
gflags, protobuf, leveldb, openssl
Description:
An industrial-grade RPC framework used throughout Baidu, with 1,000,000+ instances(not counting clients) and thousands kinds of services, called "baidu-rpc" inside Baidu. Only C++ implementatioo on is opensourced right now.

brynet

Homepage:
Spack package:
Versions:
1.10.0, 1.0.8, 1.0.7, 1.0.6
Build Dependencies:
cmake
Description:
Header Only Cross platform high performance TCP network library using C++ 11.

bsseeker2

Homepage:
Spack package:
Versions:
2.1.8, 2.1.7, 2.1.2
Build Dependencies:
python, py-pysam
Run Dependencies:
python, py-pysam
Description:
A versatile aligning pipeline for bisulfite sequencing data.

bubblewrap

Homepage:
Spack package:
Versions:
0.6.1, 0.6.0, 0.5.0, 0.4.1, 0.4.0, 0.3.3, 0.3.1
Build Dependencies:
gnuconfig, pkgconfig, libcap
Link Dependencies:
libcap
Description:
Unprivileged sandboxing tool

bucky

Homepage:
Spack package:
Versions:
1.4.4
Description:
BUCKy is a free program to combine molecular data from multiple loci. BUCKy estimates the dominant history of sampled individuals, and how much of the genome supports each relationship, using Bayesian concordance analysis.

buddy

Homepage:
Spack package:
Versions:
2.4
Build Dependencies:
gnuconfig
Description:
A Binary Decision Diagram library.

bufr

Homepage:
Spack package:
Versions:
11.5.0
Build Dependencies:
cmake
Description:
The NOAA bufr library contains subroutines, functions and other utilities that can be used to read (decode) and write (encode) data in BUFR, which is a WMO standard format for the exchange of meteorological data. This is part of the NCEPLIBS project.

bumpversion

Homepage:
Spack package:
Versions:
0.5.3, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Version-bump your software with a single command.

busco

Homepage:
Spack package:
Versions:
4.1.3, 3.0.1, 2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, blast-plus, hmmer, augustus, py-biopython
Link Dependencies:
blast-plus, hmmer, augustus
Run Dependencies:
python, py-biopython
Description:
Assesses genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs

busybox

Homepage:
Spack package:
Versions:
1.31.1, 1.31.0, 1.30.1, 1.30.0
Description:
BusyBox combines tiny versions of many common UNIX utilities into a single small executable. It provides replacements for most of the utilities you usually find in GNU fileutils, shellutils, etc

butter

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
perl, samtools, bowtie
Link Dependencies:
samtools, bowtie
Run Dependencies:
perl
Description:
butter: Bowtie UTilizing iTerative placEment of Repetitive small rnas. A wrapper for bowtie to produce small RNA-seq alignments where multimapped small RNAs tend to be placed near regions of confidently high density.

butterflypack

Homepage:
Spack package:
Versions:
master, 2.1.1, 2.1.0, 2.0.0, 1.2.1, 1.2.0, 1.1.0, 1.0.3, 1.0.1, 1.0.0
Build Dependencies:
cmake, mpi, blas, lapack, scalapack, arpack-ng
Link Dependencies:
mpi, blas, lapack, scalapack, arpack-ng
Description:
ButterflyPACK is a mathematical software for rapidly solving large-scale dense linear systems that exhibit off-diagonal rank-deficiency. These systems arise frequently from boundary element methods, or factorization phases in finite-difference/finite-element methods. ButterflyPACK relies on low-rank or butterfly formats under Hierarchical matrix, HODLR or other hierarchically nested frameworks to compress, factor and solve the linear system in quasi-linear time. The computationally most intensive phase, factorization, is accelerated via randomized linear algebras. The butterfly format, originally inspired by the butterfly data flow in fast Fourier Transform, is a linear algebra tool well-suited for compressing matrices arising from high-frequency wave equations or highly oscillatory integral operators.

bwa

Homepage:
Spack package:
Versions:
0.7.17, 0.7.15, 0.7.13, 0.7.12
Build Dependencies:
zlib, sse2neon
Link Dependencies:
zlib, sse2neon
Description:
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.

bwtool

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, libbeato
Link Dependencies:
libbeato
Description:
bwtool is a command-line utility for bigWig files.

byacc

Homepage:
Spack package:
Versions:
20210808
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
Berkeley Yacc is an LALR(1) parser generator. Berkeley Yacc has been made as compatible as possible with AT&T Yacc. Berkeley Yacc can accept any input specification that conforms to the AT&T Yacc documentation. Specifications that take advantage of undocumented features of AT&T Yacc will probably be rejected.

byobu

Homepage:
Spack package:
Versions:
5.131, 5.127, 5.125, 5.123
Build Dependencies:
gnuconfig, tmux
Run Dependencies:
tmux
Description:
Byobu: Text-based window manager and terminal multiplexer.

byte-unixbench

Homepage:
Spack package:
Versions:
5.1.3
Description:
UnixBench is the original BYTE UNIX benchmark suite.

byteman

Homepage:
Spack package:
Versions:
4.0.12, 4.0.11, 4.0.10, 4.0.9, 4.0.8, 4.0.7
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Byteman is a tool which makes it easy to trace, monitor and test the behaviour of Java application and JDK runtime code.

bzip2

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6
Build Dependencies:
diffutils
Description:
bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.

c

Homepage:
Spack package:
Description:
Virtual package for C compilers.

c-ares

Homepage:
Spack package:
Versions:
master, 1.15.0, 1.13.0
Build Dependencies:
cmake
Description:
c-ares: A C library for asynchronous DNS requests

c-blosc

Homepage:
Spack package:
Versions:
1.21.1, 1.21.0, 1.17.0, 1.16.3, 1.15.0, 1.12.1, 1.11.1, 1.9.2, 1.9.1, 1.9.0, 1.8.1, 1.8.0
Build Dependencies:
cmake, snappy, zlib, zstd, lz4
Link Dependencies:
snappy, zlib, zstd, lz4
Description:
Blosc, an extremely fast, multi-threaded, meta-compressor library

c-blosc2

Homepage:
Spack package:
Versions:
develop, 2.0.4, 2.0.2, 2.0.1
Build Dependencies:
cmake, lizard, lz4, snappy, zlib, zstd
Link Dependencies:
lizard, lz4, snappy, zlib, zstd
Description:
Next generation c-blosc with a new API, a new container and other bells and whistles

c-lime

Homepage:
Spack package:
Versions:
2-3-9
Build Dependencies:
gnuconfig
Description:
LIME (which can stand for Lattice QCD Interchange Message Encapsulation or more generally, Large Internet Message Encapsulation) is a simple packaging scheme for combining records containing ASCII and/or binary data.

c3d

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
cmake, itk
Link Dependencies:
itk
Description:
Image processing and conversion tool based on ITK.

ca-certificates-mozilla

Homepage:
Spack package:
Versions:
2022-03-29, 2022-03-18, 2022-02-01, 2021-10-26, 2021-09-30, 2021-07-05, 2021-05-25, 2021-04-13, 2021-01-19, 2020-12-08, 2020-10-14, 2020-07-22, 2020-06-24, 2020-01-01, 2019-11-27, 2019-10-16, 2019-08-28
Description:
The Mozilla CA certificate store in PEM format

cabana

Homepage:
Spack package:
Versions:
master, 0.4.0, 0.3.0, 0.2.0, 0.1.0-rc0, 0.1.0
Build Dependencies:
cmake, googletest, kokkos-legacy, kokkos, arborx, hypre-cmake, heffte, mpi
Link Dependencies:
kokkos-legacy, kokkos, arborx, hypre-cmake, heffte, mpi
Description:
The Exascale Co-Design Center for Particle Applications Toolkit

cachefilesd

Homepage:
Spack package:
Versions:
0.10.10, 0.10.9, 0.10.7, 0.10.6, 0.10.5
Description:
The cachefilesd daemon manages the caching files and directory that are that are used by network file systems such a AFS and NFS to do persistent caching to the local disk.

caffe

Homepage:
Spack package:
Versions:
1.0, rc5, rc4, rc3, rc2
Build Dependencies:
cuda, cmake, boost, blas, protobuf, glog, gflags, hdf5, opencv, leveldb, lmdb, python, py-numpy, matlab
Link Dependencies:
cuda, boost, blas, protobuf, glog, gflags, hdf5, opencv, leveldb, lmdb, python, matlab
Run Dependencies:
python, py-numpy
Description:
Caffe is a deep learning framework made with expression, speed, and modularity in mind. It is developed by the Berkeley Vision and Learning Center (BVLC) and by community contributors.

cairo

Homepage:
Spack package:
Versions:
1.17.4, 1.17.2, 1.16.0, 1.14.12, 1.14.8, 1.14.0
Build Dependencies:
gnuconfig, libx11, libxext, libxrender, libxcb, python, libpng, librsvg, glib, pixman, automake, autoconf, libtool, m4, freetype, pkgconfig, fontconfig
Link Dependencies:
libx11, libxext, libxrender, libxcb, libpng, librsvg, glib, pixman, freetype, fontconfig
Description:
Cairo is a 2D graphics library with support for multiple output devices.

cairomm

Homepage:
Spack package:
Versions:
1.6.4, 1.6.2
Build Dependencies:
gnuconfig, cairo, libsigcpp, pkgconfig
Link Dependencies:
cairo, libsigcpp
Description:
Cairomm is a C++ wrapper for the cairo graphics library.

caliper

Homepage:
Spack package:
Versions:
master, 2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.1.1, 2.0.1, 1.9.1, 1.9.0, 1.8.0, 1.7.0
Build Dependencies:
cuda, cmake, adiak, papi, libpfm4, mpi, unwind, elfutils, sosflow, python
Link Dependencies:
cuda, adiak, papi, libpfm4, mpi, unwind, elfutils, sosflow
Description:
Caliper is a program instrumentation and performance measurement framework. It is designed as a performance analysis toolbox in a library, allowing one to bake performance analysis capabilities directly into applications and activate them at runtime.

callflow

Homepage:
Spack package:
Versions:
develop, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pandas, py-hatchet, py-statsmodels, py-scikit-learn, py-colorlog, py-jsonschema, py-matplotlib, py-networkx, py-ipython, py-flask-socketio, py-flask-cors
Run Dependencies:
python, py-setuptools, py-numpy, py-scipy, py-pandas, py-hatchet, py-statsmodels, py-scikit-learn, py-colorlog, py-jsonschema, py-matplotlib, py-networkx, py-ipython, py-flask-socketio, py-flask-cors
Description:
CallFlow is an interactive visual analysis tool that provides a high- level overview of CCTs together with semantic refinement operations to progressively explore the CCTs.

callpath

Homepage:
Spack package:
Versions:
1.0.4, 1.0.2, 1.0.1
Build Dependencies:
cmake, libdwarf, dyninst, adept-utils, mpi
Link Dependencies:
elf, libdwarf, dyninst, adept-utils, mpi
Description:
Library for representing callpaths consistently in distributed-memory performance tools.

camellia

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, trilinos, moab, hdf5, mpi
Link Dependencies:
trilinos, moab, hdf5, mpi
Description:
Camellia: user-friendly MPI-parallel adaptive finite element package, with support for DPG and other hybrid methods, built atop Trilinos.

camp

Homepage:
Spack package:
Versions:
main, 2022.03.0, 0.3.0, 0.2.3, 0.2.2, 0.1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, cub, blt
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cub, blt
Description:
Compiler agnostic metaprogramming library providing concepts, type operations and tuples for C++ and cuda

camx

Homepage:
Spack package:
Versions:
6.50
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Comprehensive Air Quality Model with Extensions.

canal

Homepage:
Spack package:
Versions:
1.1.4, 1.1.3, 1.1.2
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Alibaba MySQL binlog incremental subscription & consumer components.

candle-benchmarks

Homepage:
Spack package:
Versions:
0.1, 0.0
Build Dependencies:
python, py-theano, py-keras, py-matplotlib, py-tqdm, py-scikit-learn, opencv, py-mdanalysis, py-mpi4py, py-h5py, py-requests
Link Dependencies:
python, opencv
Run Dependencies:
python, py-theano, py-keras, py-matplotlib, py-tqdm, py-scikit-learn, py-mdanalysis, py-mpi4py, py-h5py, py-requests
Description:
ECP-CANDLE Benchmarks

cans

Homepage:
Spack package:
Versions:
1.1.4, 1.1.3, 1.1.2, 1.1.0
Build Dependencies:
mpi, fftw
Link Dependencies:
mpi, fftw
Description:
CaNS (Canonical Navier-Stokes) is a code for massively-parallel numerical simulations of fluid flows. It aims at solving any fluid flow of an incompressible, Newtonian fluid that can benefit from a FFT-based solver for the second-order finite-difference Poisson equation in a 3D Cartesian grid.

cantera

Homepage:
Spack package:
Versions:
2.5.1, 2.4.0, 2.3.0, 2.2.1
Build Dependencies:
scons, fmt, googletest, eigen, boost, sundials, blas, lapack, yaml-cpp, python, py-cython, py-numpy, py-scipy, py-3to2, py-unittest2, py-unittest2py3k, matlab
Link Dependencies:
fmt, googletest, eigen, boost, sundials, blas, lapack, yaml-cpp
Run Dependencies:
python, py-numpy, py-scipy, py-3to2, py-unittest2, py-unittest2py3k, matlab
Description:
Cantera is a suite of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and/or transport processes.

canu

Homepage:
Spack package:
Versions:
2.0, 1.8, 1.7.1, 1.7, 1.5
Build Dependencies:
boost
Link Dependencies:
boost
Run Dependencies:
gnuplot, java, perl
Description:
A single molecule sequence assembler for genomes large and small.

cap3

Homepage:
Spack package:
Versions:
2015-02-11
Description:
CAP3 is DNA Sequence Assembly Program

capnproto

Homepage:
Spack package:
Versions:
0.8.0, 0.7.0
Build Dependencies:
gnuconfig
Description:
Cap'n Proto is an insanely fast data interchange format and capability- based RPC system.

capstone

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, next
Build Dependencies:
cmake
Description:
Capstone is a lightweight multi-platform, multi-architecture disassembly framework.

cardioid

Homepage:
Spack package:
Versions:
develop, elecfem
Build Dependencies:
cmake, blas, lapack, mpi, cuda, mfem, hypre, perl
Link Dependencies:
blas, lapack, mpi, cuda, mfem, hypre
Description:
Cardiac simulation suite.

care

Homepage:
Spack package:
Versions:
develop, master, 0.3.0, 0.2.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blt, camp, umpire, raja, chai, cub
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, camp, umpire, raja, chai, cub
Description:
Algorithms for chai managed arrays.

casacore

Homepage:
Spack package:
Versions:
3.4.0, 3.3.0, 3.2.0, 3.1.2, 3.1.1, 3.1.0, 3.0.0, 2.4.1
Build Dependencies:
cmake, readline, flex, bison, blas, lapack, cfitsio, wcslib, fftw, hdf5, adios2, mpi, python, boost, py-numpy
Link Dependencies:
readline, blas, lapack, cfitsio, wcslib, fftw, hdf5, adios2, mpi, python, boost, py-numpy
Test Dependencies:
sofa-c
Description:
A suite of c++ libraries for radio astronomy data processing.

cask

Homepage:
Spack package:
Versions:
0.8.1, 0.7.4
Build Dependencies:
emacs
Run Dependencies:
emacs
Description:
Cask is a project management tool for Emacs Lisp to automate the package development cycle; development, dependencies, testing, building, packaging and more.

casper

Homepage:
Spack package:
Versions:
0.8.2
Build Dependencies:
jellyfish, boost
Link Dependencies:
jellyfish, boost
Description:
CASPER (Context-Aware Scheme for Paired-End Read) is state-of-the art merging tool in terms of accuracy and robustness. Using this sophisticated merging method, we could get elongated reads from the forward and reverse reads.

cassandra

Homepage:
Spack package:
Versions:
4.0.1, 3.11.11, 3.11.6, 3.11.5, 2.2.19
Build Dependencies:
java
Run Dependencies:
java
Description:
Apache Cassandra is a highly-scalable partitioned row store. Rows are organized into tables with a required primary key.

catalyst

Homepage:
Spack package:
Versions:
5.6.0, 5.5.2, 5.5.1, 5.5.0, 5.4.1, 5.4.0, 5.3.0, 5.2.0, 5.1.2, 5.0.1, 4.4.0
Build Dependencies:
cmake, python, git, mpi, py-numpy, py-mpi4py, gl, osmesa, glx
Link Dependencies:
python, mpi, gl, osmesa, glx
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
Catalyst is an in situ library, with an adaptable application programming interface (API), that orchestrates the alliance between simulation and analysis and/or visualization tasks. For versions 5.7 and greater use the paraview package.

catch2

Homepage:
Spack package:
Versions:
develop, 3.0.1, 3.0.0-preview4, 3.0.0-preview3, 2.13.8, 2.13.7, 2.13.6, 2.13.5, 2.13.4, 2.13.3, 2.13.2, 2.13.1, 2.13.0, 2.12.4, 2.12.3, 2.12.1, 2.12.0, 2.11.3, 2.11.2, 2.11.1, 2.11.0, 2.10.2, 2.10.1, 2.10.0, 2.9.2, 2.9.1, 2.9.0, 2.8.0, 2.7.2, 2.7.1, 2.7.0, 2.6.1, 2.6.0, 2.5.0, 2.4.2, 2.4.1, 2.4.0, 2.3.0, 2.2.3, 2.2.2, 2.2.1, 2.1.0, 2.0.1, 1.12.1, 1.12.0, 1.11.0, 1.10.0, 1.9.7, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.2, 1.8.1, 1.8.0, 1.7.2, 1.7.1, 1.7.0, 1.6.1, 1.6.0, 1.5.9, 1.5.0, 1.4.0, 1.3.5, 1.3.0
Build Dependencies:
cmake
Description:
Catch2 is a multi-paradigm test framework for C++, which also supports Objective-C (and maybe C).

cbc

Homepage:
Spack package:
Versions:
2.10.5
Build Dependencies:
gnuconfig, coinutils, osi, cgl
Link Dependencies:
coinutils, osi, cgl
Description:
Cbc (Coin-or branch and cut) is an open-source mixed integer linear programming solver written in C++. It can be used as a callable library or using a stand-alone executable.

cbench

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
mpi, blas, lapack, fftw
Link Dependencies:
mpi, blas, lapack, fftw
Description:
Cbench is intended as a relatively straightforward toolbox of tests, benchmarks, applications, utilities, and framework to hold them together with the goal to facilitate scalable testing, benchmarking, and analysis of a Linux parallel compute cluster.

cbflib

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
m4
Description:
CBFLIB is a library of ANSI-C functions providing a simple mechanism for accessing Crystallographic Binary Files (CBF files) and Image-supporting CIF (imgCIF) files.

cblas

Homepage:
Spack package:
Versions:
2015-06-06
Build Dependencies:
blas
Link Dependencies:
blas
Description:
The BLAS (Basic Linear Algebra Subprograms) are routines that provide standard building blocks for performing basic vector and matrix operations.

cbtf

Homepage:
Spack package:
Versions:
develop, 1.9.4.1, 1.9.4, 1.9.3
Build Dependencies:
cmake, rpcsvc-proto, boost, mrnet, xerces-c, libxml2
Link Dependencies:
rpcsvc-proto, libtirpc, boost, mrnet, xerces-c, libxml2
Description:
CBTF project contains the base code for CBTF that supports creating components, component networks and the support to connect these components and component networks into sequential and distributed network tools.

cbtf-argonavis

Homepage:
Spack package:
Versions:
develop, 1.9.4.1, 1.9.4, 1.9.3
Build Dependencies:
cmake, boost, mrnet, cbtf, libmonitor, papi, cbtf-krell, cuda
Link Dependencies:
elfutils, boost, mrnet, cbtf, libmonitor, papi, cbtf-krell, cuda
Run Dependencies:
mrnet, cbtf, libmonitor, papi, cbtf-krell
Description:
CBTF Argo Navis project contains the CUDA collector and supporting libraries that was done as a result of a DOE SBIR grant.

cbtf-argonavis-gui

Homepage:
Spack package:
Versions:
develop, 1.3.0.0
Build Dependencies:
qt, cmake, boost, mrnet, cbtf, cbtf-krell, cbtf-argonavis, cuda, openspeedshop-utils, xerces-c, graphviz, qtgraph
Link Dependencies:
qt, boost, mrnet, cbtf, cbtf-krell, cbtf-argonavis, cuda, openspeedshop-utils, xerces-c, graphviz, qtgraph
Description:
CBTF Argo Navis GUI project contains the GUI that views OpenSpeedShop performance information by loading in the Sqlite database files.

cbtf-krell

Homepage:
Spack package:
Versions:
develop, 1.9.4.1, 1.9.4, 1.9.3
Build Dependencies:
cmake, rpcsvc-proto, binutils, boost, dyninst, mrnet, xerces-c, cbtf, libmonitor, libunwind, papi, llvm-openmp-ompt, openmpi, mpich, mvapich2, mpt, python, gotcha
Link Dependencies:
libtirpc, binutils, boost, dyninst, mrnet, xerces-c, cbtf, libmonitor, libunwind, papi, llvm-openmp-ompt, openmpi, mpich, mvapich2, mpt, gotcha
Run Dependencies:
mrnet, cbtf, libmonitor, papi, python
Description:
CBTF Krell project contains collector and runtime contributions to the CBTF project. These contributions include many performance data collectors and support libraries as well as some example tools that drive the data collection at HPC levels of scale.

cbtf-lanl

Homepage:
Spack package:
Versions:
develop, 1.9.4.1, 1.9.4, 1.9.3
Build Dependencies:
cmake, mrnet, xerces-c, cbtf, cbtf-krell
Link Dependencies:
mrnet, xerces-c, cbtf, cbtf-krell
Description:
CBTF LANL project contains a memory tool and data center type system command monitoring tool.

cc65

Homepage:
Spack package:
Versions:
2.18, 2.17, 2.16, 2.15, 2.14
Description:
cc65 is a complete cross development package for 65(C)02 systems, including a powerful macro assembler, a C compiler, linker, librarian and several other tools.

ccache

Homepage:
Spack package:
Versions:
4.5.1, 4.5, 4.4.2, 4.4.1, 4.4, 4.3, 4.2.1, 4.2, 4.1, 4.0, 3.7.11, 3.7.9, 3.7.1, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3, 3.2.9
Build Dependencies:
cmake, gperf, libxslt, zlib, zstd, hiredis, pkgconfig
Link Dependencies:
gperf, libxslt, zlib, zstd, hiredis
Description:
ccache is a compiler cache. It speeds up recompilation by caching previous compilations and detecting when the same compilation is being done again.

ccfits

Homepage:
Spack package:
Versions:
2.6, 2.5, 2.4
Build Dependencies:
gnuconfig, cfitsio
Link Dependencies:
cfitsio
Description:
CCfits is an object oriented interface to the cfitsio library. It is designed to make the capabilities of cfitsio available to programmers working in C++. It is written in ANSI C++ and implemented using the C++ Standard Library with namespaces, exception handling, and member template functions.

ccls

Homepage:
Spack package:
Versions:
0.20210330, 0.20201025
Build Dependencies:
cmake, llvm, rapidjson
Link Dependencies:
llvm, rapidjson
Description:
C/C++ language server

ccs-qcd

Homepage:
Spack package:
Versions:
master, 1.2.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
This program benchmarks the performance of a linear equation solver with a large sparse coefficient matrix appering in a lattice QCD probrem. Lattice QCD describes the property of protons, neutrons and neucleons in terms of more fundamental interacting elementary particles gluon and quarks.

cctools

Homepage:
Spack package:
Versions:
7.4.2, 7.2.10, 7.2.4, 7.2.3, 7.2.2, 7.2.1, 7.1.7, 7.1.5, 7.1.3, 7.1.2, 7.1.0, 7.0.18, 6.1.1
Build Dependencies:
gnuconfig, openssl, perl, python, readline, gettext, swig, zlib
Link Dependencies:
openssl, readline, gettext, swig, zlib
Run Dependencies:
perl, python
Description:
The Cooperative Computing Tools (cctools) enable large scale distributed computations to harness hundreds to thousands of machines from clusters, clouds, and grids.

cdbfasta

Homepage:
Spack package:
Versions:
2017-03-16
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Fast indexing and retrieval of fasta records from flat file databases

cdd

Homepage:
Spack package:
Versions:
0.61a
Build Dependencies:
libtool
Description:
The program cdd+ (cdd, respectively) is a C++ (ANSI C) implementation of the Double Description Method [MRTT53] for generating all vertices (i.e. extreme points) and extreme rays of a general convex polyhedron given by a system of linear inequalities

cddlib

Homepage:
Spack package:
Versions:
0.94m, 0.94h
Build Dependencies:
gnuconfig, gmp
Link Dependencies:
gmp
Description:
The C-library cddlib is a C implementation of the Double Description Method of Motzkin et al. for generating all vertices (i.e. extreme points) and extreme rays of a general convex polyhedron in R^d given by a system of linear inequalities

cdecimal

Homepage:
Spack package:
Versions:
2.3
Build Dependencies:
gnuconfig
Description:
cdecimal is a fast drop-in replacement for the decimal module in Python's standard library.

cdhit

Homepage:
Spack package:
Versions:
4.8.1, 4.6.8
Build Dependencies:
perl
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.

cdo

Homepage:
Spack package:
Versions:
2.0.5, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0, 1.9.10, 1.9.9, 1.9.8, 1.9.7.1, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.2, 1.7.2
Build Dependencies:
gnuconfig, pkgconfig, netcdf-c, hdf5, grib-api, eccodes, szip, udunits, libxml2, proj, curl, fftw-api, magics, uuid
Link Dependencies:
netcdf-c, hdf5, grib-api, eccodes, szip, udunits, libxml2, proj, curl, fftw-api, magics, uuid
Description:
CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data.

ceed

Homepage:
Spack package:
Versions:
5.0.0, 4.0.0, 3.0.0, 2.0.0, 1.0.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, libceed, libfms, occa, nekrs, gslib, nek5000, nektools, nekbone, nekcem, petsc, ratel, hypre, hpgmg, magma, pumi, omega-h, mfem, laghos, remhos, suite-sparse
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, libceed, libfms, occa, nekrs, gslib, nek5000, nektools, nekbone, nekcem, petsc, ratel, hypre, hpgmg, magma, pumi, omega-h, mfem, laghos, remhos, suite-sparse
Description:
Ceed is a collection of benchmarks, miniapps, software libraries and APIs for efficient high-order finite element and spectral element discretizations for exascale applications developed in the Department of Energy (DOE) and partially supported by the Exascale Computing Project (ECP). This is a Spack bundle package that installs the CEED software components.

cereal

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0, 1.1.2, 1.1.1, 1.1.0, 1.0.0, 0.9.1
Build Dependencies:
cmake
Description:
cereal is a header-only C++11 serialization library. cereal takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, XML, or JSON. cereal was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone.

ceres-solver

Homepage:
Spack package:
Versions:
2.0.0, 1.14.0, 1.12.0
Build Dependencies:
cmake, eigen, lapack, glog
Link Dependencies:
eigen, lapack, glog
Description:
Ceres Solver is an open source C++ library for modeling and solving large, complicated optimization problems. It can be used to solve Non- linear Least Squares problems with bounds constraints and general unconstrained optimization problems. It is a mature, feature rich, and performant library that has been used in production at Google since 2010.

cfitsio

Homepage:
Spack package:
Versions:
4.0.0, 3.49, 3.48, 3.47, 3.45, 3.42, 3.41, 3.37
Build Dependencies:
gnuconfig, curl, bzip2
Link Dependencies:
curl, bzip2
Description:
CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format.

cgal

Homepage:
Spack package:
Versions:
5.0.3, 5.0, 4.13, 4.12, 4.11, 4.9.1, 4.9, 4.7, 4.6.3
Build Dependencies:
cmake, boost, gmp, mpfr, zlib, qt, eigen
Link Dependencies:
boost, gmp, mpfr, zlib, qt, eigen
Description:
The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics.

cgdb

Homepage:
Spack package:
Versions:
master, 0.7.1, 0.7.0
Build Dependencies:
gnuconfig, ncurses, readline, autoconf, automake, libtool, m4, flex, bison, texinfo
Link Dependencies:
ncurses, readline
Run Dependencies:
gdb
Description:
A curses front-end to GDB

cgdcbxd

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, libcgroup, libmnl
Link Dependencies:
libcgroup, libmnl
Description:
cgdcbxd is a daemon used to monitor DCB netlink events and manage the net_prio control group subsystem. The daemon keeps the hierarchy and priority mappings in sync with DCBX Application events

cget

Homepage:
Spack package:
Versions:
0.1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-click, py-subprocess32
Run Dependencies:
python, py-six, py-click, py-subprocess32
Description:
Cmake package retrieval.

cgl

Homepage:
Spack package:
Versions:
0.60.3
Build Dependencies:
gnuconfig, coinutils, osi, clp
Link Dependencies:
coinutils, osi, clp
Description:
The COIN-OR Cut Generation Library (Cgl) is a collection of cut generators that can be used with other COIN-OR packages that make use of cuts, such as, among others, the linear solver Clp or the mixed integer linear programming solvers Cbc or BCP. Cgl uses the abstract class OsiSolverInterface (see Osi) to use or communicate with a solver. It does not directly call a solver.

cgm

Homepage:
Spack package:
Versions:
16.0, 13.1.1, 13.1.0, 13.1
Build Dependencies:
gnuconfig, mpi, oce
Link Dependencies:
mpi, oce
Description:
The Common Geometry Module, Argonne (CGMA) is a code library which provides geometry functionality used for mesh generation and other applications.

cgns

Homepage:
Spack package:
Versions:
develop, master, 4.3.0, 4.2.0, 4.1.2, 4.1.1, 4.1.0, 4.0.0, 3.4.1, 3.4.0, 3.3.1, 3.3.0
Build Dependencies:
cmake, hdf5, mpi
Link Dependencies:
hdf5, mpi
Description:
The CFD General Notation System (CGNS) provides a general, portable, and extensible standard for the storage and retrieval of computational fluid dynamics (CFD) analysis data.

chaco

Homepage:
Spack package:
Versions:
develop, 2020-07-16
Build Dependencies:
cmake
Description:
Graph partitioning library

chai

Homepage:
Spack package:
Versions:
develop, main, 2022.03.0, 2.4.0, 2.3.0, 2.2.2, 2.2.1, 2.2.0, 2.1.1, 2.1.0, 2.0.0, 1.2.0, 1.1.0, 1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blt, umpire, raja
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, umpire, raja
Description:
Copy-hiding array interface for data migration between memory spaces

chameleon

Homepage:
Spack package:
Versions:
master, 1.1.0
Build Dependencies:
cuda, cmake, pkgconfig, starpu, mpi, fxt, blas, lapack
Link Dependencies:
cuda, starpu, mpi, fxt, blas, lapack
Description:
Dense Linear Algebra for Scalable Multi-core Architectures and GPGPUs

changa

Homepage:
Spack package:
Versions:
master, 3.4
Build Dependencies:
gnuconfig, charmpp
Link Dependencies:
charmpp
Description:
ChaNGa (Charm N-body GrAvity solver) is a code to perform collisionless N-body simulations. It can perform cosmological simulations with periodic boundary conditions in comoving coordinates or simulations of isolated stellar systems. It also can include hydrodynamics using the Smooth Particle Hydrodynamics (SPH) technique. It uses a Barnes-Hut tree to calculate gravity, with hexadecapole expansion of nodes and Ewald summation for periodic forces. Timestepping is done with a leapfrog integrator with individual timesteps for each particle.

channelflow

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, eigen, fftw, mpi, hdf5, netcdf-c, boost
Link Dependencies:
eigen, fftw, mpi, hdf5, netcdf-c, boost
Description:
Channelflow is a software system for numerical analysis of the incompressible fluid flow in channel geometries, written in C++.

chaparral

Homepage:
Spack package:
Versions:
develop, 2020-08-28
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Radiation view factor library

chapel

Homepage:
Spack package:
Versions:
1.24.1, 1.24.0, 1.23.0, 1.22.1, 1.22.0, 1.21.0, 1.20.0, 1.19.0, 1.18.0
Build Dependencies:
gnuconfig
Description:
Chapel is a modern programming language that is parallel, productive, portable, scalable and open-source.

chaplin

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
gnuconfig
Description:
The FORTRAN library CHAPLIN enables you to numerically evaluate Harmonic polylogarithms up to weight 4 for any complex argument.

charliecloud

Homepage:
Spack package:
Versions:
master, 0.26, 0.25, 0.24, 0.23, 0.22, 0.21, 0.19, 0.18
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, rsync, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
python, py-lark-parser, py-requests
Test Dependencies:
bats
Description:
Lightweight user-defined software stacks for HPC.

charmpp

Homepage:
Spack package:
Versions:
main, 7.0.0, 6.10.2, 6.10.1, 6.10.0, 6.9.0, 6.8.2, 6.8.1, 6.8.0, 6.7.1, 6.7.0, 6.6.1, 6.6.0, 6.5.1
Build Dependencies:
cmake, mpi, papi, cuda, ucx, slurm, openmpi, automake, autoconf
Link Dependencies:
mpi, papi, cuda, ucx, slurm, openmpi, automake, autoconf
Description:
Charm++ is a parallel programming framework in C++ supported by an adaptive runtime system, which enhances user productivity and allows programs to run portably from small multicore computers (your laptop) to the largest supercomputers.

chatterbug

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
mpi, scorep
Link Dependencies:
mpi, scorep
Description:
A suite of communication-intensive proxy applications that mimic commonly found communication patterns in HPC codes. These codes can be used as synthetic codes for benchmarking, or for trace generation using Score-P / OTF2.

check

Homepage:
Spack package:
Versions:
0.12.0, 0.11.0, 0.10.0
Build Dependencies:
gnuconfig
Description:
Check is a unit testing framework for C. It features a simple interface for defining unit tests, putting little in the way of the developer. Tests are run in a separate address space, so both assertion failures and code errors that cause segmentation faults or other signals can be caught. Test results are reportable in the following: Subunit, TAP, XML, and a generic logging format.

chgcentre

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
cmake, casacore, gsl
Link Dependencies:
casacore, gsl
Description:
The chgcentre tool can be used to change the phase centre of a measurement set.

chill

Homepage:
Spack package:
Versions:
master, 0.3
Build Dependencies:
gnuconfig, boost, rose, autoconf, automake, libtool, m4, iegenlib, bison, flex, python, isl, gmp
Link Dependencies:
python
Run Dependencies:
rose, iegenlib
Description:
A polyheadral compiler for autotuning

chlorop

Homepage:
Spack package:
Versions:
1.1
Run Dependencies:
awk
Description:
Chlorop predicts the presence of chloroplast transit peptides in protein sequences and the location of potential cTP cleavage sites. You will need to obtain the tarball by visiting the URL and completing the form. You can then either run spack install with the tarball in the directory, or add it to a mirror. You will need to set the CHLOROTMP environment variable to the full path of the directory you want chlorop to use as a temporary directory.

chombo

Homepage:
Spack package:
Versions:
develop, 3.2
Build Dependencies:
blas, lapack, gmake, tcsh, mpi, hdf5
Link Dependencies:
blas, lapack, mpi, hdf5
Description:
The Chombo package provides a set of tools for implementing finite difference and finite-volume methods for the solution of partial differential equations on block-structured adaptively refined logically rectangular (i.e. Cartesian) grids.

chrony

Homepage:
Spack package:
Versions:
3.5.1, 3.5, 3.4, 3.3
Build Dependencies:
gnuconfig, ruby-asciidoctor, bison
Link Dependencies:
ruby-asciidoctor
Description:
chrony is a versatile implementation of the Network Time Protocol (NTP). It can synchronise the system clock with NTP servers, reference clocks(e.g. GPS receiver), and manual input using wristwatch and keyboard.

chrpath

Homepage:
Spack package:
Versions:
0.16
Build Dependencies:
gnuconfig
Description:
chrpath: Modifies the dynamic library load path (rpath and runpath) of compiled programs and libraries.

cinch

Homepage:
Spack package:
Versions:
master, 1.0
Description:
Cinch is a set of utilities and configuration options designed to make cmake builds easy to use and manage.

cistem

Homepage:
Spack package:
Versions:
1.0.0-beta
Build Dependencies:
gnuconfig, wxwidgets, fftw, libtiff
Link Dependencies:
wxwidgets, fftw, libtiff
Description:
cisTEM is user-friendly software to process cryo-EM images of macromolecular complexes and obtain high-resolution 3D reconstructions from them.

citcoms

Homepage:
Spack package:
Versions:
master, 3.3.1, 3.2.0
Build Dependencies:
gnuconfig, mpi, zlib, automake, autoconf, libtool, m4, hc, cuda, hdf5
Link Dependencies:
mpi, zlib, hc, cuda, hdf5
Run Dependencies:
python
Description:
CitcomS is a finite element code designed to solve compressible thermochemical convection problems relevant to Earth's mantle.

cityhash

Homepage:
Spack package:
Versions:
master, 2013-07-31
Build Dependencies:
gnuconfig
Description:
CityHash, a family of hash functions for strings.

cjson

Homepage:
Spack package:
Versions:
1.7.15
Build Dependencies:
cmake
Description:
Ultralightweight JSON parser in ANSI C.

ck

Homepage:
Spack package:
Versions:
0.6.2, 0.6.1, 0.6.0, 0.5.2, 0.5.1, 0.5.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
CK calculates class-level and metric-level code metrics in Java projects by means of static analysis (i.e. no need for compiled code).

clamav

Homepage:
Spack package:
Versions:
0.101.2
Build Dependencies:
gnuconfig, pkgconfig, json-c, openssl, pcre, yara, zlib, bzip2
Link Dependencies:
json-c, openssl, pcre, yara, zlib, bzip2, curl
Description:
Open source antivirus engine for detecting trojans, viruses, malware & other malicious threats.

clamr

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, mpi, mpe
Link Dependencies:
mpi, mpe
Description:
The CLAMR code is a cell-based adaptive mesh refinement (AMR) mini-app developed as a testbed for hybrid algorithm development using MPI and OpenCL GPU code.

clapack

Homepage:
Spack package:
Versions:
3.2.1
Build Dependencies:
atlas
Link Dependencies:
atlas
Description:
CLAPACK is a f2c'ed version of LAPACK. The CLAPACK library was built using a Fortran to C conversion utility called f2c. The entire Fortran 77 LAPACK library is run through f2c to obtain C code, and then modified to improve readability. CLAPACK's goal is to provide LAPACK for someone who does not have access to a Fortran compiler.

clara

Homepage:
Spack package:
Versions:
1.1.5, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
cmake
Description:
A simple to use, composable, command line parser for C++ 11 and beyond.

claw

Homepage:
Spack package:
Versions:
2.0.3, 2.0.2, 2.0.1, 2.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.0
Build Dependencies:
cmake, ant, bison, flex, java, libxml2
Link Dependencies:
java, libxml2
Description:
CLAW Compiler targets performance portability problem in climate and weather application written in Fortran. From a single source code, it generates architecture specific code decorated with OpenMP or OpenACC

clblast

Homepage:
Spack package:
Versions:
master, 1.5.2, 1.5.1, 1.5.0, 1.4.1, 1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
cmake, opencl
Link Dependencies:
opencl
Description:
CLBlast is a modern, lightweight, performant and tunable OpenCL BLAS library written in C++11. It is designed to leverage the full performance potential of a wide variety of OpenCL devices from different vendors, including desktop and laptop GPUs, embedded GPUs, and other accelerators. CLBlast implements BLAS routines: basic linear algebra subprograms operating on vectors and matrices.

cleaveland4

Homepage:
Spack package:
Versions:
4.4
Build Dependencies:
perl, perl-math-cdf, bowtie, viennarna, r, samtools
Link Dependencies:
bowtie, viennarna, samtools
Run Dependencies:
perl, perl-math-cdf, r
Description:
CleaveLand4: Analysis of degradome data to find sliced miRNA and siRNA targets

cleverleaf

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, samrai, hdf5, boost
Link Dependencies:
samrai, hdf5, boost
Description:
CleverLeaf is a hydrodynamics mini-app that extends CloverLeaf with Adaptive Mesh Refinement using the SAMRAI toolkit from Lawrence Livermore National Laboratory. The primary goal of CleverLeaf is to evaluate the application of AMR to the Lagrangian-Eulerian hydrodynamics scheme used by CloverLeaf.

clfft

Homepage:
Spack package:
Versions:
2.12.2
Build Dependencies:
cmake, opencl, boost
Link Dependencies:
opencl, boost
Description:
a software library containing FFT functions written in OpenCL

clhep

Homepage:
Spack package:
Versions:
2.4.5.1, 2.4.4.0, 2.4.1.3, 2.4.1.2, 2.4.1.0, 2.4.0.4, 2.4.0.2, 2.4.0.1, 2.4.0.0, 2.3.4.6, 2.3.4.5, 2.3.4.4, 2.3.4.3, 2.3.4.2, 2.3.3.2, 2.3.3.1, 2.3.3.0, 2.3.2.2, 2.3.1.1, 2.3.1.0, 2.3.0.0, 2.2.0.8, 2.2.0.5, 2.2.0.4
Build Dependencies:
cmake
Description:
CLHEP is a C++ Class Library for High Energy Physics.

cli11

Homepage:
Spack package:
Versions:
2.1.1, 2.1.0, 2.0.0, 1.9.1
Build Dependencies:
cmake
Description:
CLI11 is a command line parser for C++11 and beyond that provides a rich feature set with a simple and intuitive interface.

clinfo

Homepage:
Spack package:
Versions:
3.0.21.02.21, 3.0.20.11.20, 2.2.18.04.06
Build Dependencies:
opencl
Link Dependencies:
opencl
Description:
Print all known information about all available OpenCL platforms and devices in the system.

clingo

Homepage:
Spack package:
Versions:
master, 5.5.2, 5.5.1, 5.5.0, 5.4.1, 5.4.0, 5.3.0, 5.2.2, spack
Build Dependencies:
cmake, doxygen, re2c, bison, python, py-cffi
Link Dependencies:
python
Run Dependencies:
python, py-cffi
Description:
Clingo: A grounder and solver for logic programs Clingo is part of the Potassco project for Answer Set Programming (ASP). ASP offers a simple and powerful modeling language to describe combinatorial problems as logic programs. The clingo system then takes such a logic program and computes answer sets representing solutions to the given problem.

clingo-bootstrap

Homepage:
Spack package:
Versions:
master, 5.5.2, 5.5.1, 5.5.0, 5.4.1, 5.4.0, 5.3.0, 5.2.2, spack
Build Dependencies:
cmake, doxygen, re2c, bison, python, py-cffi
Link Dependencies:
python
Run Dependencies:
python, py-cffi
Description:
Clingo with some options used for bootstrapping

cln

Homepage:
Spack package:
Versions:
master, 1.3.6, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gmp, texinfo, gettext
Link Dependencies:
gmp
Description:
CLN is a library for efficient computations with all kinds of numbers in arbitrary precision. It features number classes for unlimited length integers, rationals, arbitrary precision floating point numbers and much more.

cloc

Homepage:
Spack package:
Versions:
1.90, 1.84, 1.80, 1.74
Build Dependencies:
perl
Link Dependencies:
perl
Description:
Count, or compute differences of, physical lines of source code in the given files (may be archives such as compressed tarballs or zip files) and/or recursively below the given directories.

cloog

Homepage:
Spack package:
Versions:
0.18.1, 0.18.0, 0.17.0
Build Dependencies:
gmp, isl
Link Dependencies:
gmp, isl
Description:
CLooG is a free software and library to generate code for scanning Z-polyhedra. That is, it finds a code (e.g. in C, FORTRAN...) that reaches each integral point of one or more parameterized polyhedra.

cloverleaf

Homepage:
Spack package:
Versions:
master, 1.1
Build Dependencies:
mpi, cuda
Link Dependencies:
mpi, cuda
Description:
Proxy Application. CloverLeaf is a miniapp that solves the compressible Euler equations on a Cartesian grid, using an explicit, second-order accurate method.

cloverleaf3d

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. CloverLeaf3D is 3D version of the CloverLeaf mini- app. CloverLeaf is a mini-app that solves the compressible Euler equations on a Cartesian grid, using an explicit, second-order accurate method.

clp

Homepage:
Spack package:
Versions:
1.17.6, 1.17.4, 1.16.11
Build Dependencies:
gnuconfig, coinutils, osi
Link Dependencies:
coinutils, osi
Description:
Clp (Coin-or linear programming) is an open-source linear programming solver written in C++.

clustal-omega

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
gnuconfig, argtable
Link Dependencies:
argtable
Description:
Clustal Omega: the last alignment program you'll ever need.

clustalw

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
gnuconfig
Description:
Multiple alignment of nucleic acid and protein sequences.

cmake

Homepage:
Spack package:
Versions:
master, 3.23.1, 3.23.0, 3.22.4, 3.22.3, 3.22.2, 3.22.1, 3.22.0, 3.21.6, 3.21.5, 3.21.4, 3.21.3, 3.21.2, 3.21.1, 3.21.0, 3.20.6, 3.20.5, 3.20.4, 3.20.3, 3.20.2, 3.20.1, 3.20.0, 3.19.8, 3.19.7, 3.19.6, 3.19.5, 3.19.4, 3.19.3, 3.19.2, 3.19.1, 3.19.0, 3.18.6, 3.18.5, 3.18.4, 3.18.3, 3.18.2, 3.18.1, 3.18.0, 3.17.5, 3.17.4, 3.17.3, 3.17.1, 3.17.0, 3.16.9, 3.16.8, 3.16.7, 3.16.6, 3.16.5, 3.16.4, 3.16.3, 3.16.2, 3.16.1, 3.16.0, 3.15.7, 3.15.6, 3.15.5, 3.15.4, 3.15.3, 3.15.2, 3.15.1, 3.15.0, 3.14.7, 3.14.6, 3.14.5, 3.14.4, 3.14.3, 3.14.2, 3.14.1, 3.14.0, 3.13.5, 3.13.4, 3.13.3, 3.13.2, 3.13.1, 3.13.0, 3.12.4, 3.12.3, 3.12.2, 3.12.1, 3.12.0, 3.11.4, 3.11.3, 3.11.2, 3.11.1, 3.11.0, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.9.6, 3.9.4, 3.9.2, 3.9.0, 3.8.2, 3.8.1, 3.8.0, 3.7.2, 3.7.1, 3.6.1, 3.6.0, 3.5.2, 3.5.1, 3.5.0, 3.4.3, 3.4.0, 3.3.1, 3.1.0, 3.0.2, 2.8.10.2
Build Dependencies:
ninja, curl, expat, zlib, libarchive, libuv, rhash, openssl, qt, ncurses, python, py-sphinx
Link Dependencies:
ninja, curl, expat, zlib, libarchive, libuv, rhash, openssl, qt, ncurses
Description:
A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software.

cmaq

Homepage:
Spack package:
Versions:
5.3.1, 5.3
Description:
Code base for the U.S. EPA's Community Multiscale Air Quality Model (CMAQ).

cmark

Homepage:
Spack package:
Versions:
0.29.0, 0.28.3, 0.28.2, 0.28.1, 0.28.0, 0.27.1
Build Dependencies:
cmake
Description:
cmark is the C reference implementation of CommonMark, a rationalized version of Markdown syntax with a spec.

cminpack

Homepage:
Spack package:
Versions:
master, 1.3.6
Build Dependencies:
cmake, blas
Link Dependencies:
blas
Description:
This is a C version of the minpack minimization package. Minpack includes software for solving nonlinear equations and nonlinear least squares problems.

cmocka

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
cmake
Description:
Unit-testing framework in pure C

cmockery

Homepage:
Spack package:
Versions:
0.1.2, 0.1.1, 0.1.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
A lightweight library to simplify and generalize the process of writing unit tests for C applications.

cmor

Homepage:
Spack package:
Versions:
3.6.1, 3.6.0, 3.5.0, 3.4.0, 3.3.0, 3.2.0, 3.1.2
Build Dependencies:
gnuconfig, hdf5, ossp-uuid, util-linux-uuid, json-c, netcdf-c, udunits, python, py-pip, py-wheel, py-numpy
Link Dependencies:
hdf5, ossp-uuid, util-linux-uuid, json-c, netcdf-c, udunits
Run Dependencies:
python, py-numpy
Description:
Climate Model Output Rewriter is used to produce CF-compliant netCDF files. The structure of the files created by the library and the metadata they contain fulfill the requirements of many of the climate community's standard model experiments.

cni-plugins

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
go
Description:
Standard networking plugins for container networking

cnmem

Homepage:
Spack package:
Versions:
git
Build Dependencies:
cmake
Description:
CNMem mempool for CUDA devices

cnpy

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Link Dependencies:
zlib
Description:
cnpy: library to read/write .npy and .npz files in C/C++.

cntk

Homepage:
Spack package:
Versions:
master, 2.0
Build Dependencies:
libzip, openblas, mpi, boost, protobuf, kaldi, opencv, cuda, cub, cudnn, nccl, cntk1bitsgd, multiverso
Link Dependencies:
libzip, openblas, mpi, boost, protobuf, kaldi, opencv, cuda, cub, cudnn, nccl, cntk1bitsgd, multiverso
Description:
The Microsoft Cognitive Toolkit is a unified deep-learning toolkit that describes neural networks as a series of computational steps via a directed graph.

cntk1bitsgd

Homepage:
Spack package:
Versions:
master, c8b77d
Description:
CNTK1bitSGD is the header-only 1-bit stochastic gradient descent (1bit- SGD) library for the Computational Network Toolkit (CNTK).

cnvnator

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
samtools, htslib, root, bzip2, curl, xz, zlib, libdeflate, openssl
Link Dependencies:
samtools, htslib, root, bzip2, curl, xz, zlib, libdeflate, openssl
Description:
A tool for CNV discovery and genotyping from depth-of-coverage by mapped reads.

codar-cheetah

Homepage:
Spack package:
Versions:
develop, 1.1.0, 1.0.0, 0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
CODAR Cheetah: The CODAR Experiment Harness for Exascale science applications.

code-server

Homepage:
Spack package:
Versions:
4.4.0, 4.3.0, 4.2.0, 4.1.0, 4.0.2, 4.0.1, 3.12.0, 3.11.1, 3.11.0, 3.10.2, 3.10.1, 3.10.0, 3.9.3, 3.9.2, 3.9.1, 3.9.0, 3.8.1, 3.8.0, 3.7.4, 3.7.3, 3.7.2, 3.7.1, 3.7.0, 3.6.2, 3.6.1, 3.6.0, 3.5.0, 3.4.1, 3.4.0, 3.3.1, 3.3.0, 3.2.0, 3.1.1, 3.1.0, 3.0.2
Description:
code-server is VS Code running on a remote server, accessible through the browser.

codec2

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
cmake
Description:
Open source speech codec designed for communications quality speech between 450 and 3200 bit/s. The main application is low bandwidth HF/VHF digital radio.

codes

Homepage:
Spack package:
Versions:
develop, 1.1.0, 1.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, bison, flex, mpi, ross, sst-dumpi
Link Dependencies:
mpi, ross, sst-dumpi
Description:
CO-Design of multi-layer Exascale Storage (CODES) simulation framework

coevp

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi, silo, flann, lapack
Link Dependencies:
mpi, silo, flann, lapack
Description:
CoEVP is a scale-bridging proxy application for embedded viscoplasticity applications. It is created and maintained by The Exascale Co-Design Center for Materials in Extreme Environments (ExMatEx). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement it as needed to test performance of new architectures, programming models, etc. Due to the size and complexity of the studied models, as well as restrictions on distribution, the currently available LULESH proxy application provides the coarse-scale model implementation and the ASPA proxy application provides the adaptive sampling support.

cohmm

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuplot
Link Dependencies:
gnuplot
Description:
An anticipated important use-case for next-generation supercomputing is multiscale modeling, in which continuum equations for large-scale material deformation are augmented with high-fidelity, fine-scale simulations that provide constitutive data on demand.

coin3d

Homepage:
Spack package:
Versions:
3.1.0, 3.0.0, 2.0.0
Build Dependencies:
gnuconfig, boost, doxygen, perl
Link Dependencies:
glu, gl, libsm, libxext, libice, uuid, libxcb, libxau
Description:
Coin is an OpenGL-based, 3D graphics library that has its roots in the Open Inventor 2.1 API, which Coin still is compatible with.

coinhsl

Homepage:
Spack package:
Versions:
2019.05.21, 2015.06.23, 2014.01.17, 2014.01.10
Build Dependencies:
gnuconfig, blas
Link Dependencies:
blas
Description:
CoinHSL is a collection of linear algebra libraries (KB22, MA27, MA28, MA54, MA57, MA64, MA77, MA86, MA97, MC19, MC34, MC64, MC68, MC69, MC78, MC80, OF01, ZB01, ZB11) bundled for use with IPOPT and other applications that use these HSL routines. Note: CoinHSL is licensed software. You will need to request a license from Research Councils UK and download a .tar.gz archive of CoinHSL yourself. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

coinutils

Homepage:
Spack package:
Versions:
2.11.4
Build Dependencies:
gnuconfig
Description:
CoinUtils is an open-source collection of classes and helper functions that are generally useful to multiple COIN-OR projects.

collectd

Homepage:
Spack package:
Versions:
5.12.0, 5.11.0, 5.10.0
Build Dependencies:
gnuconfig
Test Dependencies:
valgrind
Description:
The system statistics collection daemon.

collier

Homepage:
Spack package:
Versions:
1.2.5, 1.2.4, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1, 1.0
Build Dependencies:
cmake
Description:
COLLIER: A Complex One-Loop LIbrary with Extended Regularizations for the numerical evaluation of one-loop scalar and tensor integrals appearing in perturbative relativistic quantum field theory.

colm

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
gnuconfig
Description:
Colm Programming Language Colm is a programming language designed for the analysis and transformation of computer languages. Colm is influenced primarily by TXL. It is in the family of program transformation languages.

colordiff

Homepage:
Spack package:
Versions:
1.0.19, 1.0.18
Build Dependencies:
perl
Link Dependencies:
perl
Description:
Colorful diff utility.

comd

Homepage:
Spack package:
Versions:
develop, 1.1
Build Dependencies:
mpi, graphviz
Link Dependencies:
mpi, graphviz
Description:
CoMD is a reference implementation of classical molecular dynamics algorithms and workloads as used in materials science. It is created and maintained by The Exascale Co-Design Center for Materials in Extreme Environments (ExMatEx). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement it as needed to test performance of new architectures, programming models, etc. New versions of CoMD will be released to incorporate the lessons learned from the co-design process.

comgr

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, rocm-cmake, llvm-amdgpu, rocm-device-libs
Link Dependencies:
zlib, z3, ncurses, llvm-amdgpu, rocm-device-libs
Description:
This provides various Lightning Compiler related services. It currently contains one library, the Code Object Manager (Comgr)

commons-lang

Homepage:
Spack package:
Versions:
2.6, 2.4
Build Dependencies:
jdk
Run Dependencies:
jdk, java
Description:
The standard Java libraries fail to provide enough methods for manipulation of its core classes. Apache Commons Lang provides these extra methods. Lang provides a host of helper utilities for the java.lang API, notably String manipulation methods, basic numerical methods, object reflection, concurrency, creation and serialization and System properties. Additionally it contains basic enhancements to java.util.Date and a series of utilities dedicated to help with building methods, such as hashCode, toString and equals.

commons-lang3

Homepage:
Spack package:
Versions:
3.7
Build Dependencies:
jdk
Run Dependencies:
jdk, java
Description:
The standard Java libraries fail to provide enough methods for manipulation of its core classes. Apache Commons Lang provides these extra methods. Lang provides a host of helper utilities for the java.lang API, notably String manipulation methods, basic numerical methods, object reflection, concurrency, creation and serialization and System properties. Additionally it contains basic enhancements to java.util.Date and a series of utilities dedicated to help with building methods, such as hashCode, toString and equals.

commons-logging

Homepage:
Spack package:
Versions:
1.2, 1.1.3, 1.1.1
Build Dependencies:
jdk
Run Dependencies:
jdk, java
Description:
When writing a library it is very useful to log information. However there are many logging implementations out there, and a library cannot impose the use of a particular one on the overall application that the library is a part of. The Logging package is an ultra-thin bridge between different logging implementations. A library that uses the commons-logging API can be used with any logging implementation at runtime. Commons-logging comes with support for a number of popular logging implementations, and writing adapters for others is a reasonably simple task.

compadre

Homepage:
Spack package:
Versions:
master, 1.3.0
Build Dependencies:
cmake, kokkos, kokkos-kernels, mpi
Link Dependencies:
kokkos, kokkos-kernels, mpi
Description:
The Compadre Toolkit provides a performance portable solution for the parallel evaluation of computationally dense kernels. The toolkit specifically targets the Generalized Moving Least Squares (GMLS) approach, which requires the inversion of small dense matrices. The result is a set of weights that provide the information needed for remap or entries that constitute the rows of some globally sparse matrix.

compiz

Homepage:
Spack package:
Versions:
0.7.8
Build Dependencies:
gnuconfig, libxcb, libxcomposite, libxfixes, libxdamage, libxrandr, libxinerama, libice, libsm, libxml2, libxslt, libxrender, libpng, glib, gconf
Link Dependencies:
libxcb, libxcomposite, libxfixes, libxdamage, libxrandr, libxinerama, libice, libsm, libxml2, libxslt, libxrender, libpng, glib, gconf
Description:
compiz - OpenGL window and compositing manager. Compiz is an OpenGL compositing manager that use GLX_EXT_texture_from_pixmap for binding redirected top-level windows to texture objects. It has a flexible plug- in system and it is designed to run well on most graphics hardware.

compose

Homepage:
Spack package:
Versions:
2.17
Build Dependencies:
hdf5
Link Dependencies:
hdf5
Description:
CompOSE: CompStar Online Supernovae Equations of State The online service CompOSE provides data tables for different state of the art equations of state (EoS) ready for further usage in astrophysical applications, nuclear physics and beyond.

compositeproto

Homepage:
Spack package:
Versions:
0.4.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Composite Extension. This package contains header files and documentation for the composite extension. Library and server implementations are separate.

conda4aarch64

Homepage:
Spack package:
Versions:
1.0.0
Description:
Conda for aarch64

conduit

Homepage:
Spack package:
Versions:
develop, master, 0.8.3, 0.8.2, 0.8.1, 0.8.0, 0.7.2, 0.7.1, 0.7.0, 0.6.0, 0.5.1, 0.5.0, 0.4.0, 0.3.1, 0.3.0, 0.2.1, 0.2.0
Build Dependencies:
cmake, python, py-numpy, py-mpi4py, hdf5, silo, adios, zfp, h5z-zfp, parmetis, metis, mpi, py-sphinx, py-sphinx-rtd-theme, doxygen
Link Dependencies:
python, hdf5, silo, adios, zfp, h5z-zfp, parmetis, metis, mpi, doxygen
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
Conduit is an open source project from Lawrence Livermore National Laboratory that provides an intuitive model for describing hierarchical scientific data in C++, C, Fortran, and Python. It is used for data coupling between packages in-core, serialization, and I/O tasks.

conmon

Homepage:
Spack package:
Versions:
2.0.30
Build Dependencies:
go, go-md2man, pkgconfig, libseccomp, glib
Link Dependencies:
libseccomp, glib
Description:
An OCI container runtime monitor

connect-proxy

Homepage:
Spack package:
Versions:
1.105
Description:
`connect.c` is a simple relaying command to make network connection via SOCKS and https proxy. The original docs are https://bitbucket.org/gotoh/connect are now 404, so the manpage is provided instead.

conserver

Homepage:
Spack package:
Versions:
8.2.5, 8.2.4, 8.2.3, 8.2.2, 8.2.1
Build Dependencies:
gnuconfig
Description:
Conserver is an application that allows multiple users to watch a serial console at the same time.

console-bridge

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0, 0.5.1, 0.5.0, 0.4.4, 0.4.3
Build Dependencies:
cmake
Description:
console_bridge is a ROS-independent, pure CMake (i.e. non-catkin and non-rosbuild package) that provides logging calls that mirror those found in rosconsole, but for applications that are not necessarily using ROS.

constype

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
constype prints on the standard output the Sun code for the type of display that the specified device is. It was originally written for SunOS, but has been ported to other SPARC OS'es and to Solaris on both SPARC & x86.

consul

Homepage:
Spack package:
Versions:
1.8.1, 1.8.0, 1.7.6
Build Dependencies:
go
Link Dependencies:
go
Description:
Consul is a distributed, highly available, and data center aware solution to connect and configure applications across dynamic, distributed infrastructure.

converge

Homepage:
Spack package:
Versions:
2.4.10, 2.3.23, 2.2.0, 2.1.0, 2.0.0
Build Dependencies:
mpi, openmpi
Link Dependencies:
mpi, openmpi
Description:
CONVERGE is a revolutionary computational fluid dynamics (CFD) program that eliminates the grid generation bottleneck from the simulation process. CONVERGE was developed by engine simulation experts and is straightforward to use for both engine and non-engine simulations. Unlike many CFD programs, CONVERGE automatically generates a perfectly orthogonal, structured grid at runtime based on simple, user-defined grid control parameters. This grid generation method completely eliminates the need to manually generate a grid. In addition, CONVERGE offers many other features to expedite the setup process and to ensure that your simulations are as computationally efficient as possible.

cool

Homepage:
Spack package:
Versions:
3.3.10, 3.3.7, 3.3.5, 3.3.4, 3.3.3
Build Dependencies:
cmake, coral, root, vdt, xz, qt, boost, python
Link Dependencies:
coral, root, vdt, xz, qt, boost, python
Description:
COOL provides specific software components and tools for the handling of the time variation and versioning of the experiment conditions data.

coral

Homepage:
Spack package:
Versions:
3.3.10, 3.3.3
Build Dependencies:
cmake, ninja, ccache, boost, cppunit, expat, frontier-client, libaio, mariadb, python, xerces-c, sqlite, gperftools, igprof, libunwind, valgrind, oracle-instant-client, libtirpc
Link Dependencies:
ninja, ccache, boost, cppunit, expat, frontier-client, libaio, mariadb, python, xerces-c, sqlite, gperftools, igprof, libunwind, valgrind, oracle-instant-client, libtirpc
Description:
CORAL is an abstraction layer with an SQL-free API to access data stored using relational database technologies. It is used directly by experiment-specific applications and internally by COOL.

corenlp

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
ant
Description:
Stanford CoreNLP provides a set of human language technology tools. It can give the base forms of words, their parts of speech, whether they are names of companies, people, etc., normalize dates, times, and numeric quantities, mark up the structure of sentences in terms of phrases and syntactic dependencies, indicate which noun phrases refer to the same entities, indicate sentiment, extract particular or open-class relations between entity mentions, get the quotes people said, etc.

coreutils

Homepage:
Spack package:
Versions:
9.1, 9.0, 8.32, 8.31, 8.30, 8.29, 8.26, 8.23
Build Dependencies:
gnuconfig
Description:
The GNU Core Utilities are the basic file, shell and text manipulation utilities of the GNU operating system. These are the core utilities which are expected to exist on every operating system.

corset

Homepage:
Spack package:
Versions:
1.09, 1.06
Description:
Corset is a command-line software program to go from a de novo transcriptome assembly to gene-level counts.

cosbench

Homepage:
Spack package:
Versions:
0.4.2, 0.4.1.0, 0.4.0.1
Run Dependencies:
java, curl
Description:
COSBench is a benchmarking tool to measure the performance of Cloud Object Storage services. Object storage is an emerging technology that is different from traditional file systems (e.g., NFS) or block device systems (e.g., iSCSI). Amazon S3 and Openstack* swift are well-known object storage solutions

cosign

Homepage:
Spack package:
Versions:
main, 1.3.1
Build Dependencies:
go
Description:
Cosign is a go package for container Signing, verification and storage in an OCI registry.

cosma

Homepage:
Spack package:
Versions:
master, 2.5.1, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.0.7, 2.0.2
Build Dependencies:
cmake, mpi, blas, scalapack, cuda, rocblas
Link Dependencies:
mpi, blas, scalapack, cuda, rocblas
Description:
Distributed Communication-Optimal Matrix-Matrix Multiplication Library

cosmoflow-benchmark

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cuda, python, py-h5py, py-numpy, py-pandas, py-pyyaml, py-horovod, py-mpi4py, py-tensorflow, py-torch
Link Dependencies:
cuda
Run Dependencies:
python, py-h5py, py-numpy, py-pandas, py-pyyaml, py-horovod, py-mpi4py, py-tensorflow, py-torch
Description:
This is a an implementation of the CosmoFlow 3D convolutional neural network for benchmarking. It is written in TensorFlow with the Keras API and uses Horovod for distributed training.

cosmomc

Homepage:
Spack package:
Versions:
2016.11, 2016.06
Build Dependencies:
python, mpi, planck-likelihood, py-matplotlib, py-numpy, py-pandas, py-scipy, py-six
Link Dependencies:
mpi, planck-likelihood
Run Dependencies:
python, py-matplotlib, py-numpy, py-pandas, py-scipy, py-six
Description:
CosmoMC is a Fortran 2008 Markov-Chain Monte-Carlo (MCMC) engine for exploring cosmological parameter space, together with Fortran and python code for analysing Monte-Carlo samples and importance sampling (plus a suite of scripts for building grids of runs, plotting and presenting results).

cosp2

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. CoSP2 represents a sparse linear algebra parallel algorithm for calculating the density matrix in electronic tructure theory. The algorithm is based on a recursive second-order Fermi- Operator expansion method (SP2) and is tailored for density functional based tight-binding calculations of non-metallic systems.

costa

Homepage:
Spack package:
Versions:
master, 2.0
Build Dependencies:
cmake, mpi, scalapack
Link Dependencies:
mpi, scalapack
Description:
Distributed Communication-Optimal Matrix Transpose and Reshuffle Library Based on the paper: https://arxiv.org/abs/2106.06601

cotter

Homepage:
Spack package:
Versions:
master, 20190205
Build Dependencies:
cmake, erfa, pal, aoflagger
Link Dependencies:
erfa, pal, aoflagger
Description:
Andre Offringa's cotter pre-processing pipeline.

couchdb

Homepage:
Spack package:
Versions:
3.1.0, 3.0.1, 3.0.0
Build Dependencies:
gnuconfig, icu4c, openssl, curl, node-js, mozjs, gmake, help2man, python, erlang
Link Dependencies:
icu4c, openssl, curl, node-js, mozjs
Run Dependencies:
python, erlang
Description:
A CouchDB server hosts named databases, which store documents. Each document is uniquely named in the database, and CouchDB provides a RESTful HTTP API for reading and updating (add, edit, delete) database documents.

cowsay

Homepage:
Spack package:
Versions:
3.04
Run Dependencies:
perl
Description:
A program that generates ASCII pictures of a cow with a message.

cp2k

Homepage:
Spack package:
Versions:
master, 9.1, 8.2, 8.1, 7.1, 6.1, 5.1, 4.1, 3.0
Build Dependencies:
cuda, python, blas, lapack, fftw-api, fftw, amdfftw, cray-fftw, openblas, cray-libsci, libxsmm, pkgconfig, libint, libxc, mpi, scalapack, cosma, elpa, plumed, pexsi, sirius, libvori, py-numpy, spglib, wannier90
Link Dependencies:
cuda, blas, lapack, fftw-api, fftw, amdfftw, cray-fftw, openblas, cray-libsci, libxsmm, libint, libxc, mpi, scalapack, cosma, elpa, plumed, pexsi, sirius, spglib
Description:
CP2K is a quantum chemistry and solid state physics software package that can perform atomistic simulations of solid state, liquid, molecular, periodic, material, crystal, and biological systems

cpio

Homepage:
Spack package:
Versions:
2.13
Build Dependencies:
gnuconfig
Description:
GNU cpio copies files into or out of a cpio or tar archive and the file system. The archive can be another file on the disk, a magnetic tape, or a pipe.

cpmd

Homepage:
Spack package:
Versions:
4.3
Build Dependencies:
lapack, mpi
Link Dependencies:
lapack, mpi
Description:
The CPMD code is a parallelized plane wave / pseudopotential implementation of Density Functional Theory, particularly designed for ab-initio molecular dynamics. Move to new directory, download CPMD main archive and patch.to.XXXXs manually, and run Spack

cpp-argparse

Homepage:
Spack package:
Versions:
2.2
Build Dependencies:
cmake
Description:
Argument Parser for Modern C++

cpp-httplib

Homepage:
Spack package:
Versions:
0.5.9, 0.5.8, 0.5.7, 0.5.6, 0.5.5, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.4.2, 0.3.3, 0.2.6, 0.2.1
Build Dependencies:
cmake
Description:
A C++ header-only HTTP/HTTPS server and client library.

cpp-termcolor

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
cmake
Description:
Termcolor is a header-only C++ library for printing colored messages to the terminal.

cppad

Homepage:
Spack package:
Versions:
develop, 20170114
Build Dependencies:
cmake
Description:
A Package for Differentiation of C++ Algorithms.

cppcheck

Homepage:
Spack package:
Versions:
2.7, 2.1, 2.0, 1.90, 1.89, 1.88, 1.87, 1.81, 1.78, 1.72, 1.68
Run Dependencies:
py-pygments
Description:
A tool for static C/C++ code analysis.

cppcoro

Homepage:
Spack package:
Versions:
develop, 2021-01-13
Build Dependencies:
cmake
Description:
A library of C++ coroutine abstractions.

cppgsl

Homepage:
Spack package:
Versions:
main, 3.1.0, 2.1.0, 2.0.0, 1.0.0
Build Dependencies:
cmake
Description:
C++ Guideline Support Library

cpprestsdk

Homepage:
Spack package:
Versions:
2.10.16, 2.9.1
Build Dependencies:
cmake, boost, openssl
Link Dependencies:
boost, openssl
Description:
The C++ REST SDK is a Microsoft project for cloud-based client-server communication in native code using a modern asynchronous C++ API design. This project aims to help C++ developers connect to and interact with services.

cppunit

Homepage:
Spack package:
Versions:
1.14.0, 1.13.2
Build Dependencies:
gnuconfig
Description:
Obsolete Unit testing framework for C++

cppzmq

Homepage:
Spack package:
Versions:
master, 4.7.1, 4.6.0, 4.5.0, 4.4.1, 4.4.0, 4.3.0, 4.2.3, 4.2.2
Build Dependencies:
cmake, libzmq
Link Dependencies:
libzmq
Description:
C++ binding for 0MQ

cpu-features

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
A cross platform C99 library to get cpu features at runtime.

cpuinfo

Homepage:
Spack package:
Versions:
master, 2020-12-17, 2020-06-11, 2020-01-21, 2019-01-17, 2018-10-05, 2018-05-13, 2018-04-04
Build Dependencies:
cmake, ninja
Description:
cpuinfo is a library to detect essential for performance optimization information about host CPU.

cqrlib

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
libtool
Description:
CQRlib -- ANSI C API for Quaternion Rotations

cquery

Homepage:
Spack package:
Versions:
2018-08-23
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
a C++ header-only library for Nearest Neighbor (NN) search wih KD-trees.

cracklib

Homepage:
Spack package:
Versions:
2.9.7, 2.9.6, 2.9.5
Build Dependencies:
gnuconfig, python, gettext, fmt, zlib
Link Dependencies:
gettext, fmt, zlib
Run Dependencies:
python
Description:
CrackLib tests passwords to determine whether they match certain security-oriented characteristics, with the purpose of stopping users from choosing passwords that are easy to guess.

cradl

Homepage:
Spack package:
Versions:
master
Build Dependencies:
py-pandas, py-torch, py-torchvision, py-apex, py-gputil, py-matplotlib, py-mpi4py
Link Dependencies:
py-pandas, py-torch, py-torchvision, py-apex, py-gputil, py-matplotlib, py-mpi4py
Description:
The CRADL proxy application captured performance metrics during inference on data from multiphysics codes, specifically ALE hydrodynamics codes.

cram

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
cmake, python, mpi
Link Dependencies:
python, mpi
Run Dependencies:
python
Description:
Cram runs many small MPI jobs inside one large MPI job.

cray-fftw

Homepage:
Spack package:
Versions:
3.3.8.12, 3.3.8.8, 3.3.8.7
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). This package is a wrapper for Cray's version of FFTW. To install this package, list it as an external package in packages.yaml, and make sure to load the correct cray-fftw module. In some cases you need to load cray-mpich before cray- fftw.

cray-libsci

Homepage:
Spack package:
Versions:
21.08.1.2, 20.06.1, 20.03.1, 19.06.1, 18.12.1, 18.11.1.2, 16.11.1, 16.09.1, 16.07.1, 16.06.1, 16.03.1
Description:
The Cray Scientific Libraries package, LibSci, is a collection of numerical routines optimized for best performance on Cray systems.

cray-mpich

Homepage:
Spack package:
Versions:
8.1.7, 8.1.0, 8.0.16, 8.0.14, 8.0.11, 8.0.9, 7.7.16, 7.7.15, 7.7.14, 7.7.13
Description:
Cray's MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.

cray-mvapich2

Homepage:
Spack package:
Versions:
8.1.0, 8.0.16, 8.0.14, 8.0.11, 8.0.9, 7.7.16, 7.7.15, 7.7.14, 7.7.13
Description:
Cray/HPE packaging of MVAPICH2 for HPE Apollo systems

cray-pmi

Homepage:
Spack package:
Versions:
5.0.17, 5.0.16, 5.0.11
Description:
Cray's Process Management Interface library

creduce

Homepage:
Spack package:
Versions:
develop, 2.10.0
Build Dependencies:
cmake, flex, libxml2, llvm, perl, perl-exporter-lite, perl-file-which, perl-getopt-tabular, perl-regexp-common, perl-termreadkey, zlib
Link Dependencies:
flex, libxml2, llvm, perl, perl-exporter-lite, perl-file-which, perl-getopt-tabular, perl-regexp-common, perl-termreadkey, zlib
Description:
C-Reduce is a tool that takes a large C, C++, or OpenCL file that has a property of interest (such as triggering a compiler bug) and automatically produces a much smaller C/C++ file that has the same property. It is intended for use by people who discover and report bugs in compilers and other tools that process source code.

crmc

Homepage:
Spack package:
Versions:
1.6.0, 1.5.7, 1.5.6
Build Dependencies:
cmake, hepmc, boost, root
Link Dependencies:
hepmc, boost, root
Description:
CRMC (Cosmic Ray Monte Carlo package). CRMC is a package providing a common interface to access the output from event generators used to model the secondary particle production in hadronic collisons.

cromwell

Homepage:
Spack package:
Versions:
44
Run Dependencies:
java
Description:
Cromwell is a Workflow Management System geared towards scientific workflows.

cromwell-womtool

Homepage:
Spack package:
Versions:
44
Run Dependencies:
java
Description:
Command line utilities for interacting with the Workflow Object Model (WOM).

cronie

Homepage:
Spack package:
Versions:
1.5.5
Build Dependencies:
gnuconfig
Description:
Cronie contains the standard UNIX daemon crond that runs specified programs at scheduled times and related tools.

crtm

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
cmake
Description:
The Community Radiative Transfer Model (CRTM) package. The CRTM is composed of four important modules for gaseous transmittance, surface emission and reflection, cloud and aerosol absorption and scattering, and a solver for a radiative transfer.

cryptopp

Homepage:
Spack package:
Versions:
7.0.0, 6.1.0, 6.0.0, 5.6.5, 5.6.4, 5.6.3, 5.6.2, 5.6.1
Build Dependencies:
gmake
Description:
Crypto++ is an open-source C++ library of cryptographic schemes. The library supports a number of different cryptography algorithms, including authenticated encryption schemes (GCM, CCM), hash functions (SHA-1, SHA2), public-key encryption (RSA, DSA), and a few obsolete/historical encryption algorithms (MD5, Panama).

cryptsetup

Homepage:
Spack package:
Versions:
2.3.5, 2.3.4, 2.3.1, 2.2.3, 2.2.2, 2.2.1
Build Dependencies:
gnuconfig, uuid, lvm2, popt, json-c, util-linux, gettext, pkgconfig, autoconf, automake, libtool, m4, openssl
Link Dependencies:
uuid, lvm2, popt, json-c, util-linux, gettext, openssl
Description:
Cryptsetup and LUKS - open-source disk encryption.

csa-c

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig
Description:
csa: Cubic Spline Approximation. csa is a C code for cubic spline approximation of 2D scattered data. It provides a C library and a command line utility csabathy.

cscope

Homepage:
Spack package:
Versions:
15.9, 15.8b
Build Dependencies:
gnuconfig, ncurses, flex, bison, pkgconfig
Link Dependencies:
ncurses
Description:
Cscope is a developer's tool for browsing source code.

csdp

Homepage:
Spack package:
Versions:
6.1.1
Build Dependencies:
atlas
Link Dependencies:
atlas
Description:
CSDP is a library of routines that implements a predictor corrector variant of the semidefinite programming algorithm of Helmberg, Rendl, Vanderbei, and Wolkowicz

ctffind

Homepage:
Spack package:
Versions:
4.1.14, 4.1.8
Build Dependencies:
gnuconfig, wxwidgets, fftw-api, libtiff, jpeg
Link Dependencies:
wxwidgets, fftw-api, libtiff, jpeg
Description:
Fast and accurate defocus estimation from electron micrographs.

ctpl

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, gtk-doc, glib
Link Dependencies:
gtk-doc, glib
Description:
CTPL is a template engine library written in C and distributed under the terms of the GNU GPL.

ctre

Homepage:
Spack package:
Versions:
master, 2.8.4, 2.8.3, 2.8.2, 2.8.1, 2.8, 2.7, 2.6.4, 2.6.3, 2.6.2, 2.6.1
Build Dependencies:
cmake
Description:
Compile time regular expressions for C++

cub

Homepage:
Spack package:
Versions:
1.16.0, 1.15.0, 1.14.0, 1.13.1, 1.13.0, 1.12.1, 1.12.0-rc0, 1.12.0, 1.11.0, 1.10.0, 1.9.10-1, 1.9.10, 1.9.9, 1.9.8-1, 1.9.8, 1.8.0, 1.7.5, 1.7.4, 1.7.3, 1.7.2, 1.7.1, 1.4.1
Description:
CUB is a C++ header library of cooperative threadblock primitives and other utilities for CUDA kernel programming.

cube

Homepage:
Spack package:
Versions:
4.6, 4.5, 4.4.4, 4.4.3, 4.4.2, 4.4, 4.3.5, 4.3.4, 4.3.3, 4.2.3
Build Dependencies:
gnuconfig, cubelib, pkgconfig, dbus, zlib, qt
Link Dependencies:
cubelib, dbus, zlib, qt
Description:
Cube the profile viewer for Score-P and Scalasca profiles. It displays a multi-dimensional performance space consisting of the dimensions: - performance metric - call path - system resource

cube-blade

Homepage:
Spack package:
Versions:
0.2
Build Dependencies:
gnuconfig, cube, cubelib, qt, otf2
Link Dependencies:
cube, cubelib, qt, otf2
Description:
Simple OTF2 trace explorer

cubelib

Homepage:
Spack package:
Versions:
4.6, 4.5, 4.4.4, 4.4.3, 4.4.2, 4.4
Build Dependencies:
gnuconfig, pkgconfig, zlib
Link Dependencies:
zlib
Description:
Component of CubeBundle: General purpose C++ library and tools

cubew

Homepage:
Spack package:
Versions:
4.6, 4.5, 4.4.3, 4.4.2, 4.4.1, 4.4
Build Dependencies:
gnuconfig, pkgconfig, zlib
Link Dependencies:
zlib
Description:
Component of CubeBundle: High performance C Writer library

cubist

Homepage:
Spack package:
Versions:
2.07
Description:
Cubist is a powerful tool for generating rule-based models that balance the need for accurate prediction against the requirements of intelligibility. Cubist models generally give better results than those produced by simple techniques such as multivariate linear regression, while also being easier to understand than neural networks.

cuda

Homepage:
Spack package:
Versions:
11.7.0, 11.6.2, 11.6.1, 11.6.0, 11.5.1, 11.5.0, 11.4.4, 11.4.3, 11.4.2, 11.4.1, 11.4.0, 11.3.1, 11.3.0, 11.2.2, 11.2.1, 11.2.0, 11.1.1, 11.1.0, 11.0.3, 11.0.2, 10.2.89, 10.1.243, 10.0.130, 9.2.88, 9.1.85, 9.0.176, 8.0.61, 8.0.44, 7.5.18, 6.5.14, 6.0.37
Build Dependencies:
libxml2
Link Dependencies:
libxml2
Run Dependencies:
ncurses
Description:
CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU). Note: This package does not currently install the drivers necessary to run CUDA. These will need to be installed manually. See: https://docs.nvidia.com/cuda/ for details.

cuda-memtest

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, cuda
Link Dependencies:
cuda
Description:
Maintained and updated fork of cuda_memtest. original homepage: http://sourceforge.net/projects/cudagpumemtest . This software tests GPU memory for hardware errors and soft errors using CUDA or OpenCL.

cudnn

Homepage:
Spack package:
Versions:
8.3.3.40-11.5, 8.3.2.44-11.5, 8.3.1.22-11.5, 8.2.4.15-11.4, 8.2.0.53-11.3, 8.2.0.53-10.2, 8.1.1.33-11.2, 8.1.1.33-10.2, 8.1.0.77-11.2, 8.1.0.77-10.2, 8.0.5.39-11.1, 8.0.5.39-11.0, 8.0.5.39-10.2, 8.0.5.39-10.1, 8.0.4.30-11.1, 8.0.4.30-11.0, 8.0.4.30-10.2, 8.0.4.30-10.1, 8.0.3.33-11.0, 8.0.3.33-10.2, 8.0.3.33-10.1, 8.0.2.39-11.0, 8.0.2.39-10.2, 8.0.2.39-10.1, 8.0.0.180-11.0, 8.0.0.180-10.2, 7.6.5.32-10.2, 7.6.5.32-10.1, 7.6.5.32-10.0, 7.6.5.32-9.2, 7.6.5.32-9.0, 7.6.4.38-10.1, 7.6.4.38-10.0, 7.6.4.38-9.2, 7.6.4.38-9.0, 7.6.3.30-10.1, 7.5.1.10-10.1, 7.5.1.10-10.0, 7.5.0.56-10.1, 7.5.0.56-10.0, 7.3.0.29-9.0, 7.2.1.38-9.0, 7.1.3-9.1, 6.0-8.0, 5.1-8.0
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
NVIDIA cuDNN is a GPU-accelerated library of primitives for deep neural networks

cunit

Homepage:
Spack package:
Versions:
2.1-3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Automated testing framework for 'C'.

cupla

Homepage:
Spack package:
Versions:
develop, master, 0.3.0
Build Dependencies:
alpaka
Link Dependencies:
alpaka
Description:
C++ User interface for the Platform independent Library Alpaka

cups

Homepage:
Spack package:
Versions:
2.2.3
Build Dependencies:
gnuconfig, gnutls, pkgconfig
Link Dependencies:
gnutls
Description:
CUPS is the standards-based, open source printing system developed by Apple Inc. for macOS and other UNIX-like operating systems. CUPS uses the Internet Printing Protocol (IPP) to support printing to local and network printers. This provides the core CUPS libraries, not a complete CUPS install.

curl

Homepage:
Spack package:
Versions:
7.83.0, 7.82.0, 7.81.0, 7.80.0, 7.79.1, 7.79.0, 7.78.0, 7.77.0, 7.76.1, 7.76.0, 7.75.0, 7.74.0, 7.73.0, 7.72.0, 7.71.0, 7.68.0, 7.64.0, 7.63.0, 7.60.0, 7.59.0, 7.56.0, 7.54.0, 7.53.1, 7.52.1, 7.50.3, 7.50.2, 7.50.1, 7.49.1, 7.47.1, 7.46.0, 7.45.0, 7.44.0, 7.43.0, 7.42.1
Build Dependencies:
gnuconfig, gnutls, mbedtls, nss, openssl, libidn2, zlib, nghttp2, libssh2, libssh, krb5, pkgconfig
Link Dependencies:
gnutls, mbedtls, nss, openssl, libidn2, zlib, nghttp2, libssh2, libssh, krb5
Description:
cURL is an open source command line tool and library for transferring data with URL syntax

cusz

Homepage:
Spack package:
Versions:
master, 0.1.2
Description:
cuSZ is a CUDA-based error-bounded lossy compressor for scientific data (floating point and integers).

cutlang

Homepage:
Spack package:
Versions:
2.12.10, 2.12.9, 2.12.8, 2.12.7, 2.12.6, 2.12.5, 2.12.4, 2.12.3, 2.12.2, 2.12.1
Build Dependencies:
root, flex, bison
Description:
CutLang is a domain specific language that aims to provide a clear, human readable way to define analyses in high energy particle physics (HEP) along with an interpretation framework of that language.

cvector

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
libtool
Description:
CVector -- ANSI C API for Dynamic Arrays

cvs

Homepage:
Spack package:
Versions:
1.12.13
Build Dependencies:
gnuconfig
Description:
CVS a very traditional source control system

cxx

Homepage:
Spack package:
Description:
Virtual package for the C++ language.

cxxopts

Homepage:
Spack package:
Versions:
3.0.0, 2.2.1, 2.2.0, 2.1.2, 2.1.1, 2.1.0, 2.0.0, 1.4.4, 1.4.3, 1.4.2, 1.4.1, 1.4.0
Build Dependencies:
cmake, icu4c
Link Dependencies:
icu4c
Description:
Lightweight C++ command line option parser

cxxtest

Homepage:
Spack package:
Versions:
4.4
Description:
C++ unit test system.

cyrus-sasl

Homepage:
Spack package:
Versions:
2.1.27, 2.1.26, 2.1.25, 2.1.24, 2.1.23
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, groff
Description:
This is the Cyrus SASL API implementation. It can be used on the client or server side to provide authentication and authorization services.

czmq

Homepage:
Spack package:
Versions:
4.1.1, 4.0.2, 3.0.2
Build Dependencies:
gnuconfig, libtool, automake, autoconf, pkgconfig, docbook-xml, docbook-xsl, uuid, libzmq
Link Dependencies:
uuid, libzmq
Description:
A C interface to the ZMQ library

dakota

Homepage:
Spack package:
Versions:
6.12, 6.9, 6.3
Build Dependencies:
cmake, netlib-lapack, blas, mpi, python, perl-data-dumper, boost
Link Dependencies:
netlib-lapack, blas, mpi, python, boost
Description:
The Dakota toolkit provides a flexible, extensible interface between analysis codes and iterative systems analysis methods. Dakota contains algorithms for: - optimization with gradient and non gradient-based methods; - uncertainty quantification with sampling, reliability, stochastic - expansion, and epistemic methods; - parameter estimation with nonlinear least squares methods; - sensitivity/variance analysis with design of experiments and - parameter study methods. These capabilities may be used on their own or as components within advanced strategies such as hybrid optimization, surrogate-based optimization, mixed integer nonlinear programming, or optimization under uncertainty.

daligner

Homepage:
Spack package:
Versions:
1.0
Description:
Daligner: The Dazzler "Overlap" Module.

dalton

Homepage:
Spack package:
Versions:
master, 2020.0, 2018.2
Build Dependencies:
cmake, mpi
Link Dependencies:
blas, lapack, hdf5, mpi
Run Dependencies:
mpi
Description:
Molecular electronic-structure program with extensive functionality for calculations of molecular properties at the HF, DFT, MCSCF, MC-srDFT, and CC levels of theory.

damageproto

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Damage Extension. This package contains header files and documentation for the X Damage extension. Library and server implementations are separate.

damaris

Homepage:
Spack package:
Versions:
master, 1.6.0, 1.5.0, 1.3.3, 1.3.2, 1.3.1
Build Dependencies:
cmake, mpi, boost, xsd, xerces-c, hdf5, paraview, visit
Link Dependencies:
mpi, boost, xsd, xerces-c, hdf5, paraview, visit
Description:
Damaris is a middleware for I/O and in situ analytics targeting large- scale, MPI-based HPC simulations.

damask

Homepage:
Spack package:
Versions:
3.0.0-alpha6, 3.0.0-alpha5, 3.0.0-alpha4
Run Dependencies:
damask-grid, damask-mesh, py-damask
Description:
DAMASK - The Duesseldorf Advanced Material Simulation Kit A unified multi-physics crystal plasticity simulation package. The solution of continuum mechanical boundary value problems requires a constitutive response that connects deformation and stress at each material point. This problem is solved in DAMASK on the basis of crystal plasticity using a variety of constitutive models and homogenization approaches. However, treating mechanics in isolation is no longer sufficient to study emergent advanced high-strength materials. In these materials, deformation happens interrelated with displacive phase transformation, significant heating, and potential damage evolution. Therefore, DAMASK is capable of handling multi-physics problems. Following a modular approach, additional field equations are solved in a fully coupled way using a staggered approach.

damask-grid

Homepage:
Spack package:
Versions:
3.0.0-alpha6, 3.0.0-alpha5, 3.0.0-alpha4
Build Dependencies:
cmake, petsc, pkgconfig, hdf5, fftw
Link Dependencies:
petsc, hdf5, fftw
Description:
Grid solver for DAMASK

damask-mesh

Homepage:
Spack package:
Versions:
3.0.0-alpha6, 3.0.0-alpha5, 3.0.0-alpha4
Build Dependencies:
cmake, petsc, pkgconfig, hdf5
Link Dependencies:
petsc, hdf5
Description:
Mesh solver for DAMASK

damselfly

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Damselfly is a model-based parallel network simulator.

darshan-runtime

Homepage:
Spack package:
Versions:
main, 3.4.0-pre1, 3.3.1, 3.3.0-pre2, 3.3.0-pre1, 3.3.0, 3.2.1, 3.2.0, 3.1.8, 3.1.7, 3.1.6, 3.1.0, 3.0.0
Build Dependencies:
gnuconfig, mpi, zlib, hdf5, papi, autoconf, automake, libtool, m4
Link Dependencies:
mpi, zlib, hdf5, papi
Description:
Darshan (runtime) is a scalable HPC I/O characterization tool designed to capture an accurate picture of application I/O behavior, including properties such as patterns of access within files, with minimum overhead. DarshanRuntime package should be installed on systems where you intend to instrument MPI applications.

darshan-util

Homepage:
Spack package:
Versions:
main, 3.4.0-pre1, 3.3.1, 3.3.0-pre2, 3.3.0-pre1, 3.3.0, 3.2.1, 3.2.0, 3.1.8, 3.1.7, 3.1.6, 3.1.0, 3.0.0
Build Dependencies:
gnuconfig, zlib, bzip2, autoconf, automake, libtool, m4
Link Dependencies:
zlib, bzip2
Run Dependencies:
bzip2
Description:
Darshan (util) is collection of tools for parsing and summarizing log files produced by Darshan (runtime) instrumentation. This package is typically installed on systems (front-end) where you intend to analyze log files produced by Darshan (runtime).

dash

Homepage:
Spack package:
Versions:
0.5.9.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
libedit
Description:
The Debian Almquist Shell.

datamash

Homepage:
Spack package:
Versions:
1.3, 1.1.0, 1.0.7, 1.0.6, 1.0.5
Build Dependencies:
gnuconfig
Description:
GNU datamash is a command-line program which performs basic numeric, textual and statistical operations on input textual data files.

dataspaces

Homepage:
Spack package:
Versions:
1.8.0, 1.6.2
Build Dependencies:
gnuconfig, m4, automake, autoconf, libtool, mpi
Link Dependencies:
mpi
Description:
an extreme scale data management framework.

datatransferkit

Homepage:
Spack package:
Versions:
master, 3.1-rc3, 3.1-rc2
Build Dependencies:
cmake, arborx, boost, trilinos
Link Dependencies:
arborx, boost, trilinos
Description:
DataTransferKit is an open-source software library of parallel solution transfer services for multiphysics simulations

date

Homepage:
Spack package:
Versions:
3.0.1, 3.0.0
Build Dependencies:
cmake, curl
Link Dependencies:
curl
Description:
A date and time library based on the C++11/14/17 <chrono> header

dateutils

Homepage:
Spack package:
Versions:
0.4.7, 0.4.6, 0.4.5
Build Dependencies:
gnuconfig
Description:
Dateutils are a bunch of tools that revolve around fiddling with dates and times in the command line with a strong focus on use cases that arise when dealing with large amounts of financial data.

davix

Homepage:
Spack package:
Versions:
0.8.1, 0.8.0, 0.7.6, 0.7.5, 0.7.3, 0.6.9, 0.6.8
Build Dependencies:
cmake, pkgconfig, libxml2, uuid, openssl
Link Dependencies:
libxml2, uuid, openssl
Description:
High-performance file management over WebDAV/HTTP.

dbcsr

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blas, lapack, mpi, libxsmm, py-fypp, pkgconfig, python, hipblas, opencl, ninja
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, blas, lapack, mpi, libxsmm, hipblas, opencl
Description:
Distributed Block Compressed Sparse Row matrix library.

dbow2

Homepage:
Spack package:
Versions:
master, shinsumicco
Build Dependencies:
cmake, boost, opencv, dlib
Link Dependencies:
boost, opencv, dlib, eigen
Description:
DBoW2 is an improved version of the DBow library, an open source C++ library for indexing and converting images into a bag-of-word representation.

dbus

Homepage:
Spack package:
Versions:
1.12.8, 1.11.2, 1.9.0, 1.8.8, 1.8.6, 1.8.4, 1.8.2
Build Dependencies:
pkgconfig, docbook-xml, docbook-xsl, expat, glib, libsm
Link Dependencies:
expat, glib, libsm
Description:
D-Bus is a message bus system, a simple way for applications to talk to one another. D-Bus supplies both a system daemon (for events such new hardware device printer queue ) and a per-user-login-session daemon (for general IPC needs among user applications). Also, the message bus is built on top of a general one-to-one message passing framework, which can be used by any two applications to communicate directly (without going through the message bus daemon).

dbus-glib

Homepage:
Spack package:
Versions:
0.110
Build Dependencies:
gnuconfig, pkgconfig, expat, glib, dbus
Link Dependencies:
expat, glib, dbus
Description:
dbus-glib package provides GLib interface for D-Bus API.

dbxtool

Homepage:
Spack package:
Versions:
8, 7
Build Dependencies:
efivar, popt
Link Dependencies:
efivar, popt
Description:
tool for managing dbx updates installed on a machine.

dcap

Homepage:
Spack package:
Versions:
2.47.12
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
dCache access protocol client library.

dcm2niix

Homepage:
Spack package:
Versions:
1.0.20210317
Build Dependencies:
cmake
Description:
DICOM to NIfTI converter

dcmtk

Homepage:
Spack package:
Versions:
3.6.6, 3.6.5, 3.6.4, 3.6.3, 3.6.2
Build Dependencies:
cmake, openssl, zlib, libtiff, libpng, libxml2, iconv
Link Dependencies:
openssl, zlib, libtiff, libpng, libxml2, iconv
Description:
DCMTK is a collection of libraries and applications implementing large parts of the DICOM standard.

dd4hep

Homepage:
Spack package:
Versions:
master, 1.20.2, 1.20.1, 1.20, 1.19, 1.18, 1.17, 1.16.1, 1.16, 1.15, 1.14.1, 1.14, 1.13.1, 1.13, 1.12.1, 1.12, 1.11.2, 1.11.1, 1.11, 1.10
Build Dependencies:
cmake, ninja, boost, root, python, xerces-c, geant4, assimp, hepmc3, intel-tbb, lcio, edm4hep, podio, py-pytest
Link Dependencies:
boost, root, xerces-c, geant4, assimp, hepmc3, intel-tbb, lcio, edm4hep, podio
Run Dependencies:
python
Test Dependencies:
py-pytest
Description:
DD4hep is a software framework for providing a complete solution for full detector description (geometry, materials, visualization, readout, alignment, calibration, etc.) for the full experiment life cycle (detector concept development, detector optimization, construction, operation). It offers a consistent description through a single source of detector information for simulation, reconstruction, analysis, etc. It distributed under the LGPLv3 License.

ddd

Homepage:
Spack package:
Versions:
3.3.12
Build Dependencies:
gnuconfig, gdb, lesstif, libelf, readline, termcap
Link Dependencies:
gdb, lesstif, libelf, readline, termcap
Description:
A graphical front-end for command-line debuggers such as GDB, DBX, WDB, Ladebug, JDB, XDB, the Perl debugger, the bash debugger bashdb, the GNU Make debugger remake, or the Python debugger pydb.

dealii

Homepage:
Spack package:
Versions:
master, 9.3.3, 9.3.2, 9.3.1, 9.3.0, 9.2.0, 9.1.1, 9.1.0, 9.0.1, 9.0.0, 8.5.1, 8.5.0, 8.4.2, 8.4.1, 8.4.0, 8.3.0, 8.2.1, 8.1.0
Build Dependencies:
cuda, cmake, blas, boost, bzip2, lapack, ninja, suite-sparse, zlib, mpi, python, adol-c, arborx, arpack-ng, assimp, doxygen, graphviz, ginkgo, gmsh, gsl, hdf5, metis, muparser, nanoflann, netcdf-c, netcdf-cxx, oce, p4est, petsc, scalapack, slepc, sundials, trilinos, symengine, tbb
Link Dependencies:
cuda, blas, boost, bzip2, lapack, suite-sparse, zlib, mpi, python, adol-c, arborx, arpack-ng, assimp, doxygen, graphviz, ginkgo, gsl, hdf5, metis, muparser, nanoflann, netcdf-c, netcdf-cxx, oce, p4est, petsc, scalapack, slepc, sundials, trilinos, symengine, tbb
Run Dependencies:
gmsh
Description:
C++ software library providing well-documented tools to build finite element codes for a broad variety of PDEs.

dealii-parameter-gui

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, qt
Link Dependencies:
qt
Description:
A qt based graphical user interface for editing deal.II .prm parameter files.

debbuild

Homepage:
Spack package:
Versions:
20.04.0
Build Dependencies:
gnuconfig, gettext
Link Dependencies:
gettext
Description:
Build deb packages from rpm specifications.

debugedit

Homepage:
Spack package:
Versions:
develop, 0.2
Build Dependencies:
gnuconfig, help2man, pkgconfig, autoconf, automake, libtool, elfutils, libiberty
Link Dependencies:
elfutils, libiberty
Description:
Debugedit is a set of libraries and programs for creating and editing debuginfo. It allows you to get build-ids and rewrite DWARF source paths. Debugedit was originally part of the rpm project, and now exists as its own separate project and is maintained by RedHat.

decentralized-internet

Homepage:
Spack package:
Versions:
4.2.3
Description:
A library for building decentralized and grid computing projects

deconseq-standalone

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
perl
Link Dependencies:
perl
Description:
The DeconSeq tool can be used to automatically detect and efficiently remove sequence contaminations from genomic and metagenomic datasets.

dejagnu

Homepage:
Spack package:
Versions:
1.6, 1.4.4
Build Dependencies:
gnuconfig, expect, tcl
Link Dependencies:
expect, tcl
Description:
DejaGnu is a framework for testing other programs. Its purpose is to provide a single front end for all tests.

delly2

Homepage:
Spack package:
Versions:
2017-08-03, 0.9.1
Build Dependencies:
htslib, boost
Link Dependencies:
htslib, boost
Run Dependencies:
bcftools
Description:
Delly2 is an integrated structural variant prediction method that can discover, genotype and visualize deletions, tandem duplications, inversions and translocations at single-nucleotide resolution in short- read massively parallel sequencing data..

delphes

Homepage:
Spack package:
Versions:
master, 3.5.0, 3.4.2, 3.4.1, 3.4.0, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.0, 3.1.2, 3.1.1, 3.1.0, 3.0.12, 3.0.11, 3.0.10, 3.0.9, 3.0.8, 3.0.7, 3.0.6, 3.0.5
Build Dependencies:
cmake, root, pythia8
Link Dependencies:
root, pythia8
Description:
A high energy physics framework for fast simulation of a generic collider experiment.

delta

Homepage:
Spack package:
Versions:
0.7.0, 0.6.1, 0.6.0, 0.5.0, 0.4.0
Build Dependencies:
java
Run Dependencies:
java
Description:
Delta Lake is a storage layer that brings scalable, ACID transactions to Apache Spark and other big-data engines.

denovogear

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
cmake, boost, htslib, eigen
Link Dependencies:
zlib
Description:
DeNovoGear is a software package to detect de novo mutations using next- generation sequencing data. It supports the analysis of many differential experimental designs and uses advanced statistical models to reduce the false positve rate.

dftbplus

Homepage:
Spack package:
Versions:
19.1
Build Dependencies:
lapack, blas, scalapack, mpi, elsi, magma, arpack-ng, dftd3-lib
Link Dependencies:
lapack, blas, scalapack, mpi, elsi, magma, arpack-ng, dftd3-lib
Description:
DFTB+ is an implementation of the Density Functional based Tight Binding (DFTB) method, containing many extensions to the original method.

dftd3-lib

Homepage:
Spack package:
Versions:
0.9.2
Description:
A dispersion correction for density functionals, Hartree-Fock and semi- empirical quantum chemical methods

dftd4

Homepage:
Spack package:
Versions:
main, 3.4.0, 3.3.0, 3.2.0, 3.1.0, 3.0.0
Build Dependencies:
meson, ninja, blas, cmake, lapack, pkgconfig, py-cffi, python
Link Dependencies:
blas, lapack, py-cffi, python
Description:
Generally Applicable Atomic-Charge Dependent London Dispersion Correction

dftfe

Homepage:
Spack package:
Versions:
0.6.0, 0.5.2, 0.5.1, 0.5.0
Build Dependencies:
cmake, mpi, dealii, scalapack, alglib, libxc, spglib, libxml2
Link Dependencies:
mpi, dealii, scalapack, alglib, libxc, spglib, libxml2
Description:
Real-space DFT calculations using Finite Elements

dhpmm-f

Homepage:
Spack package:
Versions:
alpha
Link Dependencies:
blas, lapack
Description:
DHPMM_P:High-precision Matrix Multiplication with Faithful Rounding

dhtest

Homepage:
Spack package:
Versions:
1.5
Description:
dhtest linux dhcp client simulation tool. It can simulate hundreds of dhcp client from a linux machine. Linux root login is needed because the tool requires layer2 raw socket for sending and receiving dhcp packets.

dia

Homepage:
Spack package:
Versions:
0.97.3
Build Dependencies:
intltool, gettext, pkgconfig, gtkplus, libxslt, python, swig, libsm, uuid, libxinerama, libxrender, libxml2, freetype
Link Dependencies:
gtkplus, libxslt, python, swig, libsm, uuid, libxinerama, libxrender, libxml2, freetype
Description:
Dia is a program for drawing structured diagrams.

dialign

Homepage:
Spack package:
Versions:
2.2.1
Description:
DIALIGN is a software program for multiple sequence alignment developed by Burkhard Morgenstern et al..

dialign-tx

Homepage:
Spack package:
Versions:
1.0.2
Description:
DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment

diamond

Homepage:
Spack package:
Versions:
2.0.15, 2.0.14, 2.0.11, 2.0.9, 2.0.8, 2.0.4, 0.9.25, 0.9.23, 0.9.22, 0.9.21, 0.9.20, 0.9.19, 0.9.14, 0.8.38, 0.8.26
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib
Description:
DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.

dicom3tools

Homepage:
Spack package:
Versions:
1.00.snapshot.20210306100017
Build Dependencies:
bzip2, imake, libx11
Link Dependencies:
libx11
Description:
Command line utilities for creating, modifying, dumping and validating files of DICOM attributes, and conversion of proprietary image formats to DICOM. Can handle older ACR/NEMA format data, and some proprietary versions of that such as SPI.

diffmark

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, libxml2
Link Dependencies:
libxml2
Description:
Diffmark is a DSL for transforming one string to another.

diffsplice

Homepage:
Spack package:
Versions:
0.1.2beta, 0.1.1
Description:
A novel tool for discovering and quantitating alternative splicing variants present in an RNA-seq dataset, without relying on annotated transcriptome or pre-determined splice pattern.

diffutils

Homepage:
Spack package:
Versions:
3.8, 3.7, 3.6
Build Dependencies:
gnuconfig, iconv
Link Dependencies:
iconv
Description:
GNU Diffutils is a package of several programs related to finding differences between files.

dihydrogen

Homepage:
Spack package:
Versions:
develop, master, 0.2.1, 0.2.0, 0.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, aluminum, cudnn, cub, openblas, intel-mkl, veclibfort, essl, netlib-lapack, cray-libsci, half, ninja, llvm-openmp, nvshmem
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, aluminum, cudnn, cub, openblas, intel-mkl, veclibfort, essl, netlib-lapack, cray-libsci, half, llvm-openmp, nvshmem
Test Dependencies:
catch2
Description:
DiHydrogen is the second version of the Hydrogen fork of the well-known distributed linear algebra library, Elemental. DiHydrogen aims to be a basic distributed multilinear algebra interface with a particular emphasis on the needs of the distributed machine learning effort, LBANN.

dimemas

Homepage:
Spack package:
Versions:
5.4.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, bison, flex, boost
Link Dependencies:
bison, flex, boost
Run Dependencies:
bison, flex
Description:
High-abstracted network simulator for message-passing programs.

ding-libs

Homepage:
Spack package:
Versions:
0.6.1, 0.6.0, 0.5.0
Build Dependencies:
gnuconfig
Description:
A meta-package that pulls in libcollection, libdhash, libini_config, librefarray libbasicobjects, and libpath_utils.

dire

Homepage:
Spack package:
Versions:
2.004
Build Dependencies:
zlib, boost, lhapdf, hepmc, pythia8
Link Dependencies:
zlib, boost, lhapdf, hepmc, pythia8
Description:
DIRE (short for dipole resummation) a C++ program for all-order radiative corrections to scattering processes in high-energy particle collisions.

direnv

Homepage:
Spack package:
Versions:
2.31.0, 2.30.2, 2.20.0, 2.11.3
Build Dependencies:
go
Description:
direnv is an environment switcher for the shell.

discovar

Homepage:
Spack package:
Versions:
52488
Build Dependencies:
gnuconfig
Description:
DISCOVAR is a variant caller and small genome assembler.

discovardenovo

Homepage:
Spack package:
Versions:
52488
Build Dependencies:
gnuconfig, samtools, jemalloc
Link Dependencies:
samtools, jemalloc
Description:
DISCOVAR de novo is a large (and small) de novo genome assembler. It quickly generates highly accurate and complete assemblies using the same single library data as used by DISCOVAR. It currently doesn't support variant calling, for that, please use DISCOVAR instead.

disktype

Homepage:
Spack package:
Versions:
9.2.1
Description:
A fork of the disktype disk and disk image format detection tool.

dislin

Homepage:
Spack package:
Versions:
11.0
Build Dependencies:
motif, gl, glx
Link Dependencies:
motif, gl, glx
Description:
DISLIN is a high level and easy to use graphics library for displaying data as curves, bar graphs, pie charts, 3D-colour plots, surfaces, contours and maps.

distcc

Homepage:
Spack package:
Versions:
3.3.5, 3.3.3
Build Dependencies:
gnuconfig, popt, libiberty
Link Dependencies:
popt, libiberty
Description:
distcc is a program to distribute compilation of C or C++ code across several machines on a network.

diy

Homepage:
Spack package:
Versions:
master, 3.5.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Data-parallel out-of-core library

dlib

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, opencv
Link Dependencies:
opencv
Description:
DLib is a collection of C++ classes to solve common tasks in C++ programs, as well as to offer additional functionality to use OpenCV data and to solve computer vision problems.

dlpack

Homepage:
Spack package:
Versions:
master, 0.5, 0.4, 0.3, 0.2, 0.1
Description:
DLPack is an RFC for common tensor and operator guidelines in deep learning systems.

dmd

Homepage:
Spack package:
Versions:
2.081.1, 2.081.0
Build Dependencies:
openssl, curl
Link Dependencies:
openssl, curl
Description:
DMD is the reference compiler for the D programming language.

dmidecode

Homepage:
Spack package:
Versions:
3-2
Description:
Dmidecode reports information about your system's hardware as described in your system BIOS according to the SMBIOS/DMI standard. .

dmlc-core

Homepage:
Spack package:
Versions:
master, 20170508
Build Dependencies:
cmake
Description:
DMLC-Core is the backbone library to support all DMLC projects, offers the bricks to build efficient and scalable distributed machine learning libraries.

dmtcp

Homepage:
Spack package:
Versions:
master, 2.6.0, 2.5.2
Build Dependencies:
gnuconfig
Description:
DMTCP (Distributed MultiThreaded Checkpointing) transparently checkpoints a single-host or distributed computation in user-space -- with no modifications to user code or to the O/S.

dmxproto

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Distributed Multihead X (DMX) Extension. This extension defines a protocol for clients to access a front-end proxy X server that controls multiple back-end X servers making up a large display.

dnsmap

Homepage:
Spack package:
Versions:
master
Description:
dnsmap was originally released back in 2006 and was inspired by the fictional story.

dnsmasq

Homepage:
Spack package:
Versions:
2.81, 2.80, 2.79, 2.78, 2.77, 2.76, 2.75, 2.74, 2.73, 2.72, 2.71, 2.70
Description:
A lightweight, caching DNS proxy with integrated DHCP server.

dnstop

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, libpcap, ncurses
Link Dependencies:
libpcap, ncurses
Description:
Stay on top of your DNS traffic.

dnstracer

Homepage:
Spack package:
Versions:
master
Description:
Dnstracer determines where a given Domain Name Server gets its information from, and follows the chain of DNS servers back to the servers which know the data.

docbook-xml

Homepage:
Spack package:
Versions:
4.5, 4.4, 4.3, 4.2
Build Dependencies:
libxml2
Description:
Docbook DTD XML files.

docbook-xsl

Homepage:
Spack package:
Versions:
1.79.2, 1.78.1
Build Dependencies:
docbook-xml, libxml2
Link Dependencies:
docbook-xml
Description:
DocBook XSLT 1.0 Stylesheets.

dock

Homepage:
Spack package:
Versions:
6.9
Build Dependencies:
bison, mpi
Link Dependencies:
mpi
Description:
DOCK is a molecular docking program used in drug discovery. This program, given a protein binding site and a small molecule, tries to predict the correct binding mode of the small molecule in the binding site, and the associated binding energy.

dos2unix

Homepage:
Spack package:
Versions:
7.4.2, 7.3.4
Build Dependencies:
gettext
Link Dependencies:
gettext
Description:
DOS/Mac to Unix and vice versa text file format converter.

dosfstools

Homepage:
Spack package:
Versions:
4.1, 4.0
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4
Description:
dosfstools consists of the programs mkfs.fat, fsck.fat and fatlabel to create, check and label file systems of the FAT family.

dotconf

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
dot.conf configuration file parser.

dotnet-core-sdk

Homepage:
Spack package:
Versions:
6.0.2, 5.0.4, 3.1.13, 2.1.300
Description:
The .NET Core SDK is a powerful development environment to write applications for all types of infrastructure.

double-conversion

Homepage:
Spack package:
Versions:
3.1.5, 2.0.2, 2.0.1, 2.0.0, 1.1.5, 1.1.4, 1.1.3
Build Dependencies:
cmake
Description:
This project (double-conversion) provides binary-decimal and decimal- binary routines for IEEE doubles. The library consists of efficient conversion routines that have been extracted from the V8 JavaScript engine. The code has been refactored and improved so that it can be used more easily in other projects. There is extensive documentation in src/double-conversion.h. Other examples can be found in test/cctest/test-conversions.cc.

doxygen

Homepage:
Spack package:
Versions:
1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.20, 1.8.18, 1.8.17, 1.8.16, 1.8.15, 1.8.14, 1.8.12, 1.8.11, 1.8.10
Build Dependencies:
cmake, python, iconv, flex, bison
Link Dependencies:
iconv
Run Dependencies:
graphviz, mscgen
Description:
Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D..

dpcpp

Homepage:
Spack package:
Versions:
develop, 2021.12, 2021.09
Build Dependencies:
cmake, ninja, cuda
Link Dependencies:
cuda
Description:
Data Parallel C++ compiler: Intel's implementation of SYCL programming model

dpdk

Homepage:
Spack package:
Versions:
20.02, 19.11, 19.08, 19.05, 19.02
Build Dependencies:
numactl
Link Dependencies:
numactl
Description:
DPDK is a set of libraries and drivers for fast packet processing. It supports many processor architectures and both FreeBSD and Linux.

draco

Homepage:
Spack package:
Versions:
develop, 7.13.0, 7.12.0, 7.11.0, 7.10.0, 7.9.1, 7.9.0, 7.8.0, 7.7.0, 7.6.0, 7.5.0, 7.4.0, 7.3.0, 7.2.0, 7.1.0, 6.25.0, 6.23.0, 6.22.0, 6.21.0, 6.20.1, 6.20.0
Build Dependencies:
cmake, gsl, mpi, numdiff, random123, python, caliper, cuda, eospac, lapack, libquo, metis, parmetis, qt, superlu-dist
Link Dependencies:
gsl, mpi, random123, caliper, cuda, eospac, lapack, libquo, metis, parmetis, qt, superlu-dist
Run Dependencies:
mpi, python, qt, py-matplotlib
Test Dependencies:
python
Description:
Draco is an object-oriented component library geared towards numerically intensive, radiation (particle) transport applications built for parallel computing hardware. It consists of semi-independent packages and a robust build system.

dracut

Homepage:
Spack package:
Versions:
050
Build Dependencies:
gnuconfig, kmod
Link Dependencies:
kmod
Description:
dracut is used to create an initramfs image by copying tools and files from an installed system and combining it with the dracut framework.

dramsim2

Homepage:
Spack package:
Versions:
2.2.2
Description:
DRAMsim is a hardware-validated, cycle-accurate C based simulator for DRAM devices such as DDR3

dramsim3

Homepage:
Spack package:
Versions:
master, 1.0.0
Build Dependencies:
cmake
Description:
DRAMsim3 models the timing paramaters and memory controller behavior for several DRAM protocols such as DDR3, DDR4, LPDDR3, LPDDR4, GDDR5, GDDR6, HBM, HMC, STT-MRAM. It is implemented in C++ as an objected oriented model that includes a parameterized DRAM bank model, DRAM controllers, command queues and system-level interfaces to interact with a CPU simulator (GEM5, ZSim) or trace workloads. It is designed to be accurate, portable and parallel.

dray

Homepage:
Spack package:
Versions:
develop, 0.1.8, 0.1.7, 0.1.6, 0.1.5, 0.1.4, 0.1.3, 0.1.2, 0.1.1, 0.1.0
Build Dependencies:
cuda, mpi, cmake, conduit, apcomp, raja, umpire, mfem
Link Dependencies:
cuda, mpi, conduit, apcomp, raja, umpire, mfem
Description:
High-Order Mesh Ray Tracer.

dri2proto

Homepage:
Spack package:
Versions:
2.8
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Direct Rendering Infrastructure 2 Extension. This extension defines a protocol to securely allow user applications to access the video hardware without requiring data to be passed through the X server.

dri3proto

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Direct Rendering Infrastructure 3 Extension. This extension defines a protocol to securely allow user applications to access the video hardware without requiring data to be passed through the X server.

drill

Homepage:
Spack package:
Versions:
1.17.0, 1.16.0, 1.15.0, 1.14.0, 1.13.0
Run Dependencies:
java
Description:
Apache Drill is a distributed MPP query layer that supports SQL and alternative query languages against NoSQL and Hadoop data storage systems.

dropwatch

Homepage:
Spack package:
Versions:
1.5.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, libnl, libpcap, binutils, readline
Link Dependencies:
libnl, libpcap, binutils, readline
Description:
Dropwatch is a project I started in an effort to improve the ability for developers and system administrator to diagnose problems in the Linux Networking stack, specifically in our ability to diagnose where packets are getting dropped.

druid

Homepage:
Spack package:
Versions:
1.1.23, 1.1.22, 1.1.21, 1.1.20, 1.1.19, 1.1.18, 1.1.16, 1.1.14
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Druid is one of the best database connection pools written in JAVA. Druid provides powerful monitoring functionalities and more.

ds

Homepage:
Spack package:
Versions:
9.8.0
Build Dependencies:
gnuconfig, autoconf, automake, m4, libtool, libx11, libxml2, libxslt, openssl, tcl, tcl-tclxml, tk
Link Dependencies:
libx11, libxml2, libxslt, openssl, tcl, tcl-tclxml, tk
Description:
SAOImage DS9 is an astronomical imaging and data visualization application.

dsdp

Homepage:
Spack package:
Versions:
5.8
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
The DSDP software is a free open source implementation of an interior- point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method. It allows feasible and infeasible starting points and provides approximate certificates of infeasibility when no feasible solution exists.

dsfmt

Homepage:
Spack package:
Versions:
2.2.5, 2.2.4
Description:
Double precision SIMD-oriented Fast Mersenne Twister

dsqss

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
cmake, mpi, python, py-numpy, py-scipy, py-toml, py-setuptools, py-pip, py-wheel
Link Dependencies:
mpi
Run Dependencies:
python, py-numpy, py-scipy, py-toml
Description:
DSQSS is a program package for solving quantum many-body problems defined on lattices. It is based on the quantum Monte Carlo method in Feynman's path integral representation.

dsrc

Homepage:
Spack package:
Versions:
2.0.2
Description:
DNA Sequence Reads Compression is an application designed for compression of data files containing reads from DNA sequencing in FASTQ format.

dssp

Homepage:
Spack package:
Versions:
3.1.4, 2.3.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, boost
Link Dependencies:
boost
Description:
'mkdssp' utility. (dictionary of protein secondary structure)

dtc

Homepage:
Spack package:
Versions:
1.6.1
Build Dependencies:
bison, flex, libyaml, pkgconfig, python
Description:
Device Tree Compiler (dtc) toolchain for working with device tree source and binary files and also libfdt, a utility library for reading and manipulating the binary format.

dtcmp

Homepage:
Spack package:
Versions:
main, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.3
Build Dependencies:
gnuconfig, mpi, lwgrp
Link Dependencies:
mpi, lwgrp
Description:
The Datatype Comparison Library provides comparison operations and parallel sort algorithms for MPI applications.

dtf

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, mpi, m4, autoconf, automake, libtool, perl
Link Dependencies:
mpi
Description:
DTF (Data Transfer Framework) is a general I/O arbitration middleware designed for multi-component applications that use file-base component coupling. DTF works for applications that use the Parallel netCDF (PnetCDF) library for file I/O. It allows the user to transparently replace file I/O with sending the data directly between the components.

duperemove

Homepage:
Spack package:
Versions:
0.11.1
Build Dependencies:
glib, sqlite
Link Dependencies:
glib, sqlite
Description:
Duperemove is a simple tool for finding duplicated extents and submitting them for deduplication.

dust

Homepage:
Spack package:
Versions:
0.7.5
Build Dependencies:
rust
Link Dependencies:
rust
Description:
du + rust = dust. Like du but more intuitive.

dwz

Homepage:
Spack package:
Versions:
0.14-patches, 0.14
Build Dependencies:
elf
Link Dependencies:
elf
Description:
DWZ: A DWARF optimization and duplicate removal tool

dyninst

Homepage:
Spack package:
Versions:
master, 12.1.0, 12.0.1, 12.0.0, 11.0.1, 11.0.0, 10.2.1, 10.2.0, 10.1.0, 10.0.0, 9.3.2, 9.3.0, 9.2.0, 9.1.0, 8.2.1
Build Dependencies:
cmake, boost, libiberty, libdwarf, tbb
Link Dependencies:
boost, libiberty, elfutils, libelf, libdwarf, tbb
Description:
API for dynamic binary instrumentation. Modify programs while they are executing without recompiling, re-linking, or re-executing.

dysco

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
cmake, casacore, gsl, boost
Link Dependencies:
casacore, gsl, boost
Description:
Dysco is a compressing storage manager for Casacore mearement sets.

e2fsprogs

Homepage:
Spack package:
Versions:
1.45.6, 1.45.5
Build Dependencies:
gnuconfig, texinfo
Description:
It provides the filesystem utilities for use with the ext2 filesystem. It also supports the ext3 and ext4 filesystems.

ea-utils

Homepage:
Spack package:
Versions:
2021-10-20, 1.04.807
Build Dependencies:
sparsehash, zlib, gsl, bamtools, perl
Link Dependencies:
sparsehash, zlib, gsl, bamtools
Run Dependencies:
perl
Description:
Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs.

eagle

Homepage:
Spack package:
Versions:
1.1.3, 1.1.2
Build Dependencies:
curl, zlib, lzma, htslib
Link Dependencies:
curl, zlib, lzma, htslib
Description:
EAGLE: Explicit Alternative Genome Likelihood Evaluator

earlyoom

Homepage:
Spack package:
Versions:
1.6.1, 1.6
Description:
The oom-killer generally has a bad reputation among Linux users.

easi

Homepage:
Spack package:
Versions:
develop, 1.1.2
Build Dependencies:
cmake, asagi, yaml-cpp, impalajit-llvm, lua, git
Link Dependencies:
asagi, yaml-cpp, impalajit-llvm, lua
Description:
easi is a library for the Easy Initialization of models in three (or less or more) dimensional domains.

easybuild

Homepage:
Spack package:
Versions:
4.0.0, 3.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-easybuild-framework, py-easybuild-easyblocks, py-easybuild-easyconfigs
Description:
EasyBuild is a software build and installation framework for (scientific) software on HPC systems.

ebms

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
This is a miniapp for the Energy Banding Monte Carlo (EBMC) neutron transportation simulation code. It is adapted from a similar miniapp provided by Andrew Siegel, whose algorithm is described in [1], where only one process in a compute node is used, and the compute nodes are divided into memory nodes and tracking nodes. Memory nodes do not participate in particle tracking. Obviously, there is a lot of resource waste in this design.

ecbuild

Homepage:
Spack package:
Versions:
3.6.5, 3.6.1
Build Dependencies:
cmake, perl
Run Dependencies:
cmake, perl
Description:
ecBuild is the ECMWF build system. It is built on top of CMake and consists of a set of macros as well as a wrapper around CMake

eccodes

Homepage:
Spack package:
Versions:
develop, 2.25.0, 2.24.2, 2.23.0, 2.22.1, 2.21.0, 2.20.0, 2.19.1, 2.18.0, 2.13.0, 2.5.0, 2.2.0
Build Dependencies:
cmake, netcdf-c, openjpeg, jasper, libpng, libaec, python, py-numpy, ecbuild
Link Dependencies:
netcdf-c, openjpeg, jasper, libpng, libaec, python
Run Dependencies:
python, py-numpy
Description:
ecCodes is a package developed by ECMWF for processing meteorological data in GRIB (1/2), BUFR (3/4) and GTS header formats.

ecdsautils

Homepage:
Spack package:
Versions:
0.3.2, 0.3.1
Build Dependencies:
cmake, libuecc
Description:
Tiny collection of programs used for ECDSA.

ecflow

Homepage:
Spack package:
Versions:
4.13.0, 4.12.0, 4.11.1
Build Dependencies:
cmake, boost, qt
Link Dependencies:
boost, qt
Description:
ecFlow is a work flow package that enables users to run a large number of programs (with dependencies on each other and on time) in a controlled environment. It provides tolerance for hardware and software failures, combined with good restart capabilities.

eckit

Homepage:
Spack package:
Versions:
1.16.0
Build Dependencies:
cmake, ecbuild, mpi, yacc, flex, ncurses, eigen, armadillo, mkl, lapack, bzip2, snappy, lz4, libaec, openssl, curl, jemalloc
Link Dependencies:
mpi, ncurses, eigen, armadillo, mkl, lapack, bzip2, snappy, lz4, libaec, openssl, curl, jemalloc
Description:
ecKit is a cross-platform c++ toolkit that supports development of tools and applications at ECMWF.

eclipse-gcj-parser

Homepage:
Spack package:
Versions:
4.8
Description:
GCJ requires the Eclipse Java parser, but does not ship with it. This builds that parser into an executable binary, thereby making GCJ work.

ecos

Homepage:
Spack package:
Versions:
2.0.7
Description:
A lightweight conic solver for second-order cone programming.

ecoslim

Homepage:
Spack package:
Versions:
master, 1.3
Build Dependencies:
cmake
Description:
EcoSLIM is a Lagrangian, particle-tracking code that simulates advective and diffusive movement of water parcels. EcoSLIM integrates seamlessly with ParFlow-CLM.

ecp-proxy-apps

Homepage:
Spack package:
Versions:
4.0, 3.0, 2.1, 2.0, 1.1, 1.0
Build Dependencies:
minigan, cradl, cosmoflow-benchmark, mlperf-deepcam, miniamr, xsbench, laghos, amg, ember, miniqmc, minivite, picsarlite, thornado-mini, candle-benchmarks, macsio, sw4lite, examinimd, nekbone, swfft, minife, minitri, comd
Link Dependencies:
minigan, cradl, cosmoflow-benchmark, mlperf-deepcam, miniamr, xsbench, laghos, amg, ember, miniqmc, minivite, picsarlite, thornado-mini, candle-benchmarks, macsio, sw4lite, examinimd, nekbone, swfft, minife, minitri, comd
Description:
This is a collection of packages that represents the official suite of DOE/ECP proxy applications. This is a Spack bundle package that installs the ECP proxy application suite.

ed

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
gnuconfig
Description:
GNU ed is a line-oriented text editor. It is used to create, display, modify and otherwise manipulate text files, both interactively and via shell scripts.

editline

Homepage:
Spack package:
Versions:
1.16.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, ncurses
Link Dependencies:
ncurses
Description:
A readline() replacement for UNIX without termcap (ncurses)

editres

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libxaw, libx11, libxt, libxmu, pkgconfig, util-macros
Link Dependencies:
libxaw, libx11, libxt, libxmu
Description:
Dynamic resource editor for X Toolkit applications.

edm4hep

Homepage:
Spack package:
Versions:
master, 0.4.1, 0.4, 0.3.2, 0.3.1, 0.3
Build Dependencies:
cmake, python, root, podio, py-jinja2, py-pyyaml
Link Dependencies:
root, podio
Test Dependencies:
hepmc, hepmc3, heppdt, catch2
Description:
Event data model of Key4hep.

eem

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
EEM is a program to extract the gene group and expression modules that are co-expressed in the mRNA expression data.

efivar

Homepage:
Spack package:
Versions:
37, 36, 35
Description:
Tools and libraries to work with EFI variables

eigen

Homepage:
Spack package:
Versions:
3.4.0, 3.3.9, 3.3.8, 3.3.7, 3.3.6, 3.3.5, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.10, 3.2.9, 3.2.8, 3.2.7, 3.2.6, 3.2.5
Build Dependencies:
cmake
Description:
Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms.

eigenexa

Homepage:
Spack package:
Versions:
2.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, lapack, scalapack
Link Dependencies:
mpi, lapack, scalapack
Description:
EigenExa is a high-performance eigenvalue solver.

elasticsearch

Homepage:
Spack package:
Versions:
6.4.0, 6.3.0, 6.2.4
Run Dependencies:
java
Description:
Elasticsearch is a search engine based on Lucene. It provides a distributed, multitenant-capable full-text search engine with an HTTP web interface and schema-free JSON documents.

elemental

Homepage:
Spack package:
Versions:
develop, 0.87.7, 0.87.6
Build Dependencies:
cmake, blas, openblas, intel-mkl, veclibfort, essl, lapack, netlib-lapack, metis, mpi, scalapack, python, gmp, mpc, mpfr
Link Dependencies:
blas, openblas, intel-mkl, veclibfort, essl, lapack, netlib-lapack, metis, mpi, scalapack, python, gmp, mpc, mpfr
Run Dependencies:
python
Description:
Elemental: Distributed-memory dense and sparse-direct linear algebra and optimization library.

elfio

Homepage:
Spack package:
Versions:
3.10, 3.9, 3.8, 3.7
Build Dependencies:
cmake
Description:
ELFIO is a header-only C++ library intended for reading and generating files in the ELF binary format.

elfutils

Homepage:
Spack package:
Versions:
0.186, 0.185, 0.184, 0.183, 0.182, 0.181, 0.180, 0.179, 0.178, 0.177, 0.176, 0.175, 0.174, 0.173, 0.170, 0.168, 0.163
Build Dependencies:
gnuconfig, gettext, m4
Link Dependencies:
bzip2, xz, zlib, gettext, libmicrohttpd, libarchive, sqlite, curl
Description:
elfutils is a collection of various binary tools such as eu-objdump, eu- readelf, and other utilities that allow you to inspect and manipulate ELF files. Refer to Table 5.Tools Included in elfutils for Red Hat Developer for a complete list of binary tools that are distributed with the Red Hat Developer Toolset version of elfutils.

elk

Homepage:
Spack package:
Versions:
7.2.42, 7.1.14, 7.0.12, 3.3.17
Build Dependencies:
blas, lapack, mkl, openblas, blis, fftw, mpi, libxc, wannier90
Link Dependencies:
blas, lapack, mkl, openblas, blis, fftw, mpi, libxc, wannier90
Description:
An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features.

elmerfem

Homepage:
Spack package:
Versions:
9.0, 8.4, ice, devel
Build Dependencies:
cmake, qt, qwt, paraview, mpi, netcdf-fortran, blas, lapack, scalapack, mumps, hypre, trilinos, zoltan, lua, nn-c, csa-c
Link Dependencies:
qt, qwt, paraview, mpi, netcdf-fortran, blas, lapack, scalapack, mumps, hypre, trilinos, zoltan, lua, nn-c, csa-c
Description:
Elmer is an open source multiphysical simulation software. It includes physical models of fluid dynamics, structural mechanics, electromagnetics, heat transfer and acoustics.

elpa

Homepage:
Spack package:
Versions:
2021.11.001, 2021.05.002_bugfix, 2021.05.001, 2020.05.001, 2019.11.001, 2019.05.002, 2018.11.001, 2018.05.001.rc1, 2017.11.001, 2017.05.003, 2017.05.002, 2017.05.001, 2016.11.001.pre, 2016.05.004, 2016.05.003, 2015.11.001
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gnuconfig, blas, lapack, mpi, scalapack, rocblas, libtool, python
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, blas, lapack, mpi, scalapack, rocblas
Description:
Eigenvalue solvers for Petaflop-Applications (ELPA)

elsd

Homepage:
Spack package:
Versions:
master
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
ELSD: Ellipse and Line Segment Detector

elsdc

Homepage:
Spack package:
Versions:
master
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
ELSDc: Ellipse and Line Segment Detector, with Continuous validation.

elsi

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
cmake, mpi, elpa, ntpoly, slepc, petsc, superlu-dist
Link Dependencies:
blas, lapack, mpi, scalapack, elpa, ntpoly, slepc, petsc, superlu-dist
Description:
ELSI provides a unified interface for electronic structure codes to a variety of eigenvalue solvers.

emacs

Homepage:
Spack package:
Versions:
master, 27.2, 27.1, 26.3, 26.2, 26.1, 25.3, 25.2, 25.1, 24.5
Build Dependencies:
gnuconfig, pkgconfig, ncurses, pcre, zlib, libxml2, libtiff, libpng, libxpm, giflib, libx11, libxaw, gtkplus, gnutls, jpeg, m4, autoconf, automake, libtool, texinfo, gcc
Link Dependencies:
ncurses, pcre, zlib, libxml2, libtiff, libpng, libxpm, giflib, libx11, libxaw, gtkplus, gnutls, jpeg, gcc
Description:
The Emacs programmable text editor.

ember

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Ember Communication Pattern Library The Ember suite provides communication patterns in a simplified setting (simplified by the removal of application calculations, control flow, etc.).

emboss

Homepage:
Spack package:
Versions:
6.6.0
Build Dependencies:
gnuconfig, libxpm, libgd, postgresql
Link Dependencies:
libxpm, libgd, postgresql
Description:
EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) user community

embree

Homepage:
Spack package:
Versions:
3.13.1, 3.13.0, 3.12.2, 3.12.1, 3.12.0, 3.11.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0
Build Dependencies:
cmake, ispc, tbb
Link Dependencies:
tbb
Description:
Intel Embree High Performance Ray Tracing Kernels

enca

Homepage:
Spack package:
Versions:
1.19, 1.18, 1.17, 1.16
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
Extremely Naive Charset Analyser.

enchant

Homepage:
Spack package:
Versions:
2.2.7, 2.2.6, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.3, 2.1.2, 2.1.1, 2.1.0
Build Dependencies:
gnuconfig, glib, aspell, hunspell
Link Dependencies:
glib, aspell, hunspell
Description:
Enchant is a library (and command-line program) that wraps a number of different spelling libraries and programs with a consistent interface.

energyplus

Homepage:
Spack package:
Versions:
9.3.0, 9.1.0, 8.9.0
Description:
EnergyPlus is a whole building energy simulation program that engineers, architects, and researchers use to model both energy consumption for heating, cooling, ventilation, lighting and plug and process loads and water use in buildings

entrezdirect

Homepage:
Spack package:
Versions:
10.7.20190114
Run Dependencies:
perl, perl-html-parser, perl-libwww-perl, perl-lwp-protocol-https, perl-http-message, perl-xml-simple
Description:
Entrez Direct (EDirect) provides access to the NCBI's suite of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window.

entt

Homepage:
Spack package:
Versions:
3.5.2
Build Dependencies:
cmake, doxygen
Description:
EnTT is a header-only, tiny and easy to use library for game programming and much more written in modern C++, mainly known for its innovative entity-component-system (ECS) model.

environment-modules

Homepage:
Spack package:
Versions:
5.1.0, 5.0.1, 5.0.0, 4.8.0, 4.7.1, 4.7.0, 4.6.1, 4.6.0, 4.5.3, 4.5.2, 4.5.1, 4.5.0, 4.4.1, 4.4.0, 4.3.1, 4.3.0, 4.2.5, 4.2.4, 4.2.3, 4.2.2, 4.2.1, 4.2.0, 4.1.4, 4.1.3, 4.1.2, 4.1.1, 4.1.0, 4.0.0, 3.2.10
Build Dependencies:
tcl
Link Dependencies:
tcl
Run Dependencies:
tcl
Description:
The Environment Modules package provides for the dynamic modification of a user's environment via module files.

enzo

Homepage:
Spack package:
Versions:
main, master, 2.6.1
Build Dependencies:
mpi, hdf5, sse2neon
Link Dependencies:
mpi, hdf5, sse2neon
Description:
The Enzo adaptive mesh-refinement simulation code.

enzyme

Homepage:
Spack package:
Versions:
main, 0.0.15, 0.0.14, 0.0.13
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
The Enzyme project is a tool for performing reverse-mode automatic differentiation (AD) of statically-analyzable LLVM IR. This allows developers to use Enzyme to automatically create gradients of their source code without much additional work.

eospac

Homepage:
Spack package:
Versions:
6.5.0beta, 6.5.0alpha.1, 6.5.0, 6.4.2beta, 6.4.2, 6.4.1beta, 6.4.1alpha.2, 6.4.1, 6.4.0beta.4, 6.4.0beta.3, 6.4.0beta.2, 6.4.0beta.1, 6.4.0, 6.3.1
Description:
A collection of C routines that can be used to access the Sesame data library.

eq-r

Homepage:
Spack package:
Versions:
master, 1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, r-rinside, r-rcpp, r, tcl, swig
Link Dependencies:
mpi, r-rinside, r-rcpp, r, tcl, swig
Description:
EMEWS Queues for R (EQ/R) Installs EQ/R.

er

Homepage:
Spack package:
Versions:
main, 0.1.0, 0.0.4, 0.0.3
Build Dependencies:
cmake, mpi, kvtree, rankstr, redset, shuffile
Link Dependencies:
mpi, kvtree, rankstr, redset, shuffile, zlib
Description:
Encoding and redundancy on a file set

erfa

Homepage:
Spack package:
Versions:
1.7.0, 1.4.0
Build Dependencies:
gnuconfig
Description:
ERFA (Essential Routines for Fundamental Astronomy) is a C library containing key algorithms for astronomy.

erlang

Homepage:
Spack package:
Versions:
23.3, 23.2, 23.1, 23.0, 22.2, 22.1, 22.0, 21.3, 21.2
Build Dependencies:
gnuconfig, autoconf, automake, m4, libtool
Link Dependencies:
ncurses
Description:
Erlang is a programming language and runtime system for building massively scalable soft real-time systems with requirements on high availability.

ermod

Homepage:
Spack package:
Versions:
0.3.6, 0.3.5
Build Dependencies:
gnuconfig, fftw, blas
Link Dependencies:
fftw, blas
Description:
ERmod (Energy Representation Module) is a program to calculate the solvation free energy based on the energy representation method. The program allows users to calculate the solvation free energy to arbitrary solvents, including inhomogeneous systems, and can run in cooperation with state-of-art molecular simulation softwares, such as NAMD, GROMACS and/or AMBER.

erne

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
gnuconfig, boost, openmpi
Link Dependencies:
boost
Run Dependencies:
boost, openmpi
Description:
The Extended Randomized Numerical alignEr using BWT

es-shell

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
gnuconfig, readline, yacc
Link Dependencies:
readline, yacc
Description:
Es is an extensible shell. The language was derived from the Plan 9 shell, rc, and was influenced by functional programming languages, such as Scheme, and the Tcl embeddable programming language. This implementation is derived from Byron Rakitzis's public domain implementation of rc.

esmf

Homepage:
Spack package:
Versions:
8.2.0, 8.1.1, 8.0.1, 8.0.0, 7.1.0r
Build Dependencies:
zlib, libxml2, mpi, lapack, netcdf-c, netcdf-fortran, parallel-netcdf, xerces-c
Link Dependencies:
zlib, libxml2, mpi, lapack, netcdf-c, netcdf-fortran, parallel-netcdf, xerces-c
Test Dependencies:
perl
Description:
The Earth System Modeling Framework (ESMF) is high-performance, flexible software infrastructure for building and coupling weather, climate, and related Earth science applications. The ESMF defines an architecture for composing complex, coupled modeling systems and includes data structures and utilities for developing individual models.

espanso

Homepage:
Spack package:
Versions:
0.6.3, 0.6.2, 0.6.1, 0.6.0, 0.5.5, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.5.0
Build Dependencies:
xclip, xdotool
Link Dependencies:
xclip, xdotool
Description:
Cross-platform Text Expander written in Rust

essl

Homepage:
Spack package:
Versions:
6.2.1.1
Description:
IBM's Engineering and Scientific Subroutine Library (ESSL).

esys-particle

Homepage:
Spack package:
Versions:
3.0-alpha
Build Dependencies:
cmake, mpi, boost, python, py-setuptools
Link Dependencies:
mpi, boost, python
Description:
ESyS-Particle is Open Source software for particle-based numerical modelling. The software implements the Discrete Element Method (DEM), a widely used technique for modelling processes involving large deformations, granular flow and/or fragmentation.

etcd

Homepage:
Spack package:
Versions:
3.4.7, 3.4.6, 3.4.5, 3.4.4, 3.3.20
Build Dependencies:
go
Link Dependencies:
go
Description:
etcd is a distributed reliable key-value store for the most critical data of a distributed system

ethminer

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
cmake, python, boost, json-c, curl, zlib, cuda, mesa
Link Dependencies:
python, boost, json-c, curl, zlib, cuda, mesa
Description:
The ethminer is an Ethereum GPU mining worker.

ethtool

Homepage:
Spack package:
Versions:
4.8
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Ethtool is a small utility for examining and tuning your ethernet-based network interface.

etsf-io

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
netcdf-fortran, hdf5
Link Dependencies:
netcdf-fortran, hdf5
Description:
ETSF_IO is a library implementing the Nanoquanta/ETSF file format specifications. ETSF_IO enables an architecture-independent exchange of crystallographic data, electronic wavefunctions, densities and potentials, as well as spectroscopic data. It is meant to be used by quantum-physical and quantum-chemical applications relying upon Density Functional Theory (DFT).

eve

Homepage:
Spack package:
Versions:
main, 2022.03.0, 2021.10.0
Build Dependencies:
cmake
Description:
Expressive Velocity Engine - SIMD in C++ Goes Brrrr

evemu

Homepage:
Spack package:
Versions:
2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libevdev
Link Dependencies:
libevdev
Description:
The evemu library and tools are used to describe devices, record data, create devices and replay data from kernel evdev devices.

everytrace

Homepage:
Spack package:
Versions:
develop, 0.2.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Get stack trace EVERY time a program exits.

everytrace-example

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, everytrace, openmpi
Link Dependencies:
everytrace, openmpi
Description:
Get stack trace EVERY time a program exits.

evieext

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Extended Visual Information Extension (XEVIE). This extension defines a protocol for a client to determine information about core X visuals beyond what the core protocol provides.

evtgen

Homepage:
Spack package:
Versions:
02.00.00, 01.07.00
Build Dependencies:
cmake, hepmc, hepmc3, pythia8, tauola, photos
Link Dependencies:
hepmc, hepmc3, pythia8, tauola, photos
Description:
EvtGen is a Monte Carlo event generator that simulates the decays of heavy flavour particles, primarily B and D mesons.

exa

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
rust
Link Dependencies:
rust
Description:
exa is a replacement for ls written in Rust.

exabayes

Homepage:
Spack package:
Versions:
1.5.1, 1.5
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
ExaBayes is a software package for Bayesian tree inference. It is particularly suitable for large-scale analyses on computer clusters.

exago

Homepage:
Spack package:
Versions:
develop, master, 5-18-2022-snapshot, 1.4.1, 1.4.0, 1.3.0, 1.2.0, 1.1.2, 1.1.1, 1.1.0, 1.0.0, 0.99.2, 0.99.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, pkgconfig, mpi, blas, raja, umpire, hiop, petsc, camp, ipopt, py-mpi4py
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, blas, raja, umpire, hiop, petsc, camp, ipopt, py-mpi4py
Description:
ExaGO is a package for solving large-scale power grid optimization problems on parallel and distributed architectures, particularly targeted for exascale machines.

examinimd

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
kokkos-legacy, mpi
Link Dependencies:
kokkos-legacy, mpi
Description:
ExaMiniMD is a proxy application and research vehicle for particle codes, in particular Molecular Dynamics (MD). Compared to previous MD proxy apps (MiniMD, COMD), its design is significantly more modular in order to allow independent investigation of different aspects. To achieve that the main components such as force calculation, communication, neighbor list construction and binning are derived classes whose main functionality is accessed via virtual functions. This allows a developer to write a new derived class and drop it into the code without touching much of the rest of the application.

examl

Homepage:
Spack package:
Versions:
3.0.22, 3.0.21, 3.0.20, 3.0.19, 3.0.18, 3.0.17, 3.0.16, 3.0.15, 3.0.14, 3.0.13
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Exascale Maximum Likelihood (ExaML) code for phylogenetic inference using MPI. This code implements the popular RAxML search algorithm for maximum likelihood based inference of phylogenetic trees.

exampm

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, mpi, kokkos, silo, cabana
Link Dependencies:
mpi, kokkos, silo, cabana
Description:
Exascale Material Point Method (MPM) Mini-App

exasp2

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
bml, blas, lapack, mpi
Link Dependencies:
bml, blas, lapack, mpi
Description:
ExaSP2 is a reference implementation of typical linear algebra algorithms and workloads for a quantum molecular dynamics (QMD) electronic structure code. The algorithm is based on a recursive second- order Fermi-Operator expansion method (SP2) and is tailored for density functional based tight-binding calculations of material systems. The SP2 algorithm variants are part of the Los Alamos Transferable Tight-binding for Energetics (LATTE) code, based on a matrix expansion of the Fermi operator in a recursive series of generalized matrix-matrix multiplications. It is created and maintained by Co-Design Center for Particle Applications (CoPA). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement as needed to test performance of new architectures, programming models, etc.

exawind

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, trilinos, tioga, nalu-wind, amr-wind, openfast, yaml-cpp
Link Dependencies:
trilinos, tioga, nalu-wind, amr-wind, openfast, yaml-cpp
Description:
Multi-application driver for Exawind project.

exaworks

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
stc, flux-core, flux-sched, py-parsl, py-radical-gtod, py-radical-utils, py-radical-saga, py-radical-pilot, py-radical-entk
Run Dependencies:
stc, flux-core, flux-sched, py-parsl, py-radical-gtod, py-radical-utils, py-radical-saga, py-radical-pilot, py-radical-entk
Description:
Virtual package for the Exaworks SDK packages.

exciting

Homepage:
Spack package:
Versions:
14, oxygen
Build Dependencies:
blas, lapack, fftw, mkl, mpi, scalapack
Link Dependencies:
blas, lapack, fftw, mkl, mpi, scalapack
Description:
exciting is a full-potential all-electron density-functional-theory package implementing the families of linearized augmented planewave methods. It can be applied to all kinds of materials, irrespective of the atomic species in volved, and also allows for exploring the physics of core electrons. A particular focus are excited states within many- body perturbation theory.

exempi

Homepage:
Spack package:
Versions:
2.5.2
Build Dependencies:
gnuconfig, zlib, iconv, boost, pkgconfig, expat
Link Dependencies:
zlib, iconv, boost, pkgconfig, expat
Description:
exempi is a port of Adobe XMP SDK to work on UNIX and to be build with GNU automake. It includes XMPCore and XMPFiles, libexempi, a C-based API and exempi a command line tool.

exiv2

Homepage:
Spack package:
Versions:
0.27.2
Build Dependencies:
cmake
Link Dependencies:
zlib, expat
Description:
Exiv2 is a Cross-platform C++ library and a command line utility to manage image metadata

exmcutils

Homepage:
Spack package:
Versions:
master, 0.6.0, 0.5.7, 0.5.6
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Link Dependencies:
m4, autoconf, automake, libtool
Description:
ExM C-Utils: Generic C utility library for ADLB/X and Swift/T

exodusii

Homepage:
Spack package:
Versions:
master, 2021-04-05, 2021-04-02, 2021-01-20, 2021-01-06, 2020-08-13, 2020-05-12, 2020-03-16, 2020-01-16, 2019-12-18, 2019-10-14, 2016-08-09
Build Dependencies:
cmake, mpi, netcdf-c, python
Link Dependencies:
mpi, netcdf-c, python
Description:
Exodus II is a C++/Fortran library developed to store and retrieve data for finite element analyses. It's used for preprocessing (problem definition), postprocessing (results visualization), and data transfer between codes. An Exodus II data file is a random access, machine independent, binary file that is written and read via C, C++, or Fortran API routines.

exonerate

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
gnuconfig, pkgconfig, glib
Link Dependencies:
glib
Description:
Pairwise sequence alignment of DNA and proteins

exonerate-gff3

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
gnuconfig, glib
Link Dependencies:
glib
Description:
This is an exonerate fork with added gff3 support. Original website with user guides: http://www.ebi.ac.uk/~guy/exonerate/

expat

Homepage:
Spack package:
Versions:
2.4.8, 2.4.7, 2.4.6, 2.4.5, 2.4.4, 2.4.3, 2.4.1, 2.4.0, 2.3.0, 2.2.10, 2.2.9, 2.2.6, 2.2.5, 2.2.2, 2.2.0
Build Dependencies:
gnuconfig, libbsd
Link Dependencies:
libbsd
Description:
Expat is an XML parser library written in C.

expect

Homepage:
Spack package:
Versions:
5.45.4, 5.45.3, 5.45
Build Dependencies:
gnuconfig, tcl, automake, autoconf, libtool, m4
Link Dependencies:
tcl
Description:
Expect is a tool for automating interactive applications such as telnet, ftp, passwd, fsck, rlogin, tip, etc.

express

Homepage:
Spack package:
Versions:
1.5.3, 1.5.2, 1.5.1
Build Dependencies:
cmake, boost, bamtools, zlib
Link Dependencies:
boost, bamtools, zlib
Description:
eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences.

extrae

Homepage:
Spack package:
Versions:
3.8.3, 3.7.1, 3.4.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, libunwind, boost, libdwarf, papi, libxml2, numactl, binutils, gettext, dyninst, cuda
Link Dependencies:
mpi, libunwind, boost, libdwarf, papi, elf, libxml2, numactl, binutils, gettext, dyninst, cuda
Description:
Extrae is the package devoted to generate tracefiles which can be analyzed later by Paraver. Extrae is a tool that uses different interposition mechanisms to inject probes into the target application so as to gather information regarding the application performance. The Extrae instrumentation package can instrument the MPI programin model, and the following parallel programming models either alone or in conjunction with MPI : OpenMP, CUDA, OpenCL, pthread, OmpSs

exuberant-ctags

Homepage:
Spack package:
Versions:
5.8
Build Dependencies:
gnuconfig
Description:
The canonical ctags generator

eztrace

Homepage:
Spack package:
Versions:
master, 2.0-rc1, 1.1-13, 1.1-10
Build Dependencies:
mpi, opari2, binutils, autoconf, automake, libtool, cmake, otf2
Link Dependencies:
mpi, opari2, binutils, otf2
Description:
EZTrace is a tool to automatically generate execution traces of HPC applications.

f2c

Homepage:
Spack package:
Versions:
master
Description:
F2c converts Fortran 77 source code to C or C++ source files.

f3d

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
cmake
Link Dependencies:
vtk
Description:
A fast and minimalist scriptable 3D viewer.

f77-zmq

Homepage:
Spack package:
Versions:
4.3.2, 4.3.1
Build Dependencies:
libzmq, python
Link Dependencies:
libzmq
Description:
Fortran binding for the ZeroMQ communication library

f90cache

Homepage:
Spack package:
Versions:
0.99c, 0.99
Build Dependencies:
gnuconfig
Description:
f90cache is a compiler cache. It acts as a caching pre-processor to Fortran compilers, using the -E compiler switch and a hash to detect when a compilation can be satisfied from cache. This often results in a great speedup in common compilations.

fabtests

Homepage:
Spack package:
Versions:
1.9.1, 1.9.0, 1.8.1, 1.6.2, 1.6.1, 1.6.0, 1.5.3, 1.5.0, 1.4.2
Build Dependencies:
gnuconfig, libfabric
Link Dependencies:
libfabric
Description:
Fabtests provides a set of runtime analysis tools and examples that use libfabric.

fairlogger

Homepage:
Spack package:
Versions:
develop, 1.9.0, 1.8.0, 1.7.0, 1.6.2, 1.6.1, 1.6.0, 1.5.0, 1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.6
Build Dependencies:
cmake, git, boost, fmt
Link Dependencies:
boost, fmt
Description:
Lightweight and fast C++ Logging Library

faiss

Homepage:
Spack package:
Versions:
1.6.3, 1.5.3
Build Dependencies:
cuda, gnuconfig, python, py-pip, py-wheel, py-numpy, py-scipy, blas, py-setuptools, swig
Link Dependencies:
cuda, blas
Run Dependencies:
python, py-numpy, py-scipy
Description:
Faiss is a library for efficient similarity search and clustering of dense vectors. Faiss contains algorithms that search in sets of vectors of any size, up to ones that possibly do not fit in RAM. It also contains supporting code for evaluation and parameter tuning. Faiss is written in C++ with complete wrappers for Python/numpy. Some of the most useful algorithms are implemented on the GPU. It is developed by Facebook AI Research.

fakechroot

Homepage:
Spack package:
Versions:
2.20.1, 2.20, 2.19
Build Dependencies:
gnuconfig
Description:
fakechroot runs a command in an environment were is additional possibility to use chroot(8) command without root privileges.This is useful for allowing users to create own chrooted environment with possibility to install another packages without need for root privileges.

fakexrandr

Homepage:
Spack package:
Versions:
master
Build Dependencies:
libxrandr, libxinerama, libx11, python
Link Dependencies:
libxrandr, libxinerama, libx11
Run Dependencies:
python
Description:
This is a tool to cheat an X11 server to believe that there are more monitors than there actually are.

falcon

Homepage:
Spack package:
Versions:
2017-05-30
Build Dependencies:
python, py-pip, py-wheel, py-networkx
Run Dependencies:
python, py-setuptools, py-pypeflow, py-networkx, pacbio-dazz-db, pacbio-daligner, pacbio-dextractor, pacbio-damasker
Description:
Falcon: a set of tools for fast aligning long reads for consensus and assembly. The Falcon tool kit is a set of simple code collection which I use for studying efficient assembly algorithm for haploid and diploid genomes. It has some back-end code implemented in C for speed and some simple front-end written in Python for convenience.

fann

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake
Description:
Fast Artificial Neural Network Library is a free open source neural network library, which implements multilayer artificial neural networks in C with support for both fully connected and sparsely connected networks. Cross-platform execution in both fixed and floating point are supported. It includes a framework for easy handling of training data sets. It is easy to use, versatile, well documented, and fast. Bindings to more than 20 programming languages are available. An easy to read introduction article and a reference manual accompanies the library with examples and recommendations on how to use the library. Several graphical user interfaces are also available for the library.

faodel

Homepage:
Spack package:
Versions:
master, 1.2108.1, 1.1906.2, 1.1906.1, 1.1811.2, 1.1811.1, 1.1803.1
Build Dependencies:
cmake, mpi, boost, hdf5, libfabric
Link Dependencies:
mpi, boost, hdf5, libfabric
Test Dependencies:
googletest
Description:
Flexible, Asynchronous, Object Data-Exchange Libraries

fasd

Homepage:
Spack package:
Versions:
1.0.1
Description:
Fasd (pronounced similar to "fast") is a command-line productivity booster. Fasd offers quick access to files and directories for POSIX shells.

fast-global-file-status

Homepage:
Spack package:
Versions:
master, 1.1.1, 1.1
Build Dependencies:
gnuconfig, mrnet, mount-point-attributes, mpi, openssl, elf, autoconf, automake, libtool
Link Dependencies:
mrnet, mount-point-attributes, mpi, openssl, elf
Description:
provides a scalable mechanism to retrieve such information of a file, including its degree of distribution or replication and consistency.

fasta

Homepage:
Spack package:
Versions:
36.3.8g
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
The FASTA programs find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. Other programs provide information on the statistical significance of an alignment. Like BLAST, FASTA can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

fastdb

Homepage:
Spack package:
Versions:
3.75, 3.74
Description:
Object-Relational Main-Memory Embedded Database system tightly integrated with C++ language.

fastdfs

Homepage:
Spack package:
Versions:
6.05, 6.04, 6.03, 6.02, 6.01
Build Dependencies:
perl, libfastcommon
Description:
FastDFS is an open source high performance distributed file system. It's major functions include: file storing, file syncing and file accessing (file uploading and file downloading), and it can resolve the high capacity and load balancing problem. FastDFS should meet the requirement of the website whose service based on files such as photo sharing site and video sharing site.

fastjar

Homepage:
Spack package:
Versions:
0.98
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
Fastjar is a version of Sun's 'jar' utility, written entirely in C.

fastjet

Homepage:
Spack package:
Versions:
3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.2, 3.2.1, 3.2.0, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.6, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.4.5, 2.4.4, 2.4.3, 2.4.2, 2.4.1, 2.4.0, 2.3.4, 2.3.3, 2.3.2, 2.3.1, 2.3.0
Build Dependencies:
gnuconfig
Description:
A high energy physics software package for jet finding in pp and e+e- collisions.

fastjson

Homepage:
Spack package:
Versions:
1.2.68
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Fastjson is a Java library that can be used to convert Java Objects into their JSON representation. It can also be used to convert a JSON string to an equivalent Java object.

fastmath

Homepage:
Spack package:
Versions:
latest
Build Dependencies:
amrex, chombo, hypre, mpi, arpack-ng, petsc, phasta, pumi, sundials, superlu-dist, trilinos, zoltan
Link Dependencies:
amrex, chombo, hypre, mpi, arpack-ng, petsc, phasta, pumi, sundials, superlu-dist, trilinos, zoltan
Description:
FASTMath is a suite of ~15 numerical libraries frequently used together in various SciDAC and CSE applications. The suite includes discretization libraries for structured, AMR and unstructured grids as well as solver libraries for ODE's, Time Integrators, Iterative, Non- Linear, and Direct Solvers.

fastme

Homepage:
Spack package:
Versions:
2.1.5.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
FastME is a distance based phylogeny reconstruction program that works on distance matrices and, as of v2.0, sequence data.

fastp

Homepage:
Spack package:
Versions:
0.20.0
Description:
A tool designed to provide fast all-in-one preprocessing for FastQ files.

fastphase

Homepage:
Spack package:
Versions:
2016-03-30
Description:
Software for haplotype reconstruction, and estimating missing genotypes from population data.

fastq-screen

Homepage:
Spack package:
Versions:
0.11.2
Build Dependencies:
bowtie, bowtie2, bwa, samtools
Link Dependencies:
bowtie, bowtie2, bwa, samtools
Run Dependencies:
perl, perl-gdgraph
Description:
FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.

fastqc

Homepage:
Spack package:
Versions:
0.11.9, 0.11.7, 0.11.5, 0.11.4
Build Dependencies:
perl
Link Dependencies:
perl
Run Dependencies:
java
Description:
A quality control tool for high throughput sequence data.

fastqvalidator

Homepage:
Spack package:
Versions:
2017-01-10
Link Dependencies:
zlib
Description:
The fastQValidator validates the format of fastq files.

fasttext

Homepage:
Spack package:
Versions:
0.9.2, 0.9.1, 0.2.0, 0.1.0
Build Dependencies:
cmake
Description:
fastText is a library for efficient learning of word representations and sentence classification

fasttransforms

Homepage:
Spack package:
Versions:
0.5.0, 0.3.4
Build Dependencies:
blas, fftw, mpfr
Link Dependencies:
blas, fftw, mpfr
Description:
FastTransforms provides computational kernels and driver routines for orthogonal polynomial transforms. The univariate algorithms have a runtime complexity of O(n log n), while the multivariate algorithms are 2-normwise backward stable with a runtime complexity of O(nd+1), where n is the polynomial degree and d is the spatial dimension of the problem.

fasttree

Homepage:
Spack package:
Versions:
2.1.10
Description:
FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences.

fastx-toolkit

Homepage:
Spack package:
Versions:
0.0.14
Build Dependencies:
gnuconfig, libgtextutils
Link Dependencies:
libgtextutils
Description:
The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.

faust

Homepage:
Spack package:
Versions:
2.27.2, 2.27.1
Build Dependencies:
cmake
Description:
Faust (Functional Audio Stream) is a functional programming language specifically designed for real-time signal processing and synthesis. A distinctive characteristic of Faust is to be fully compiled.

fbgemm

Homepage:
Spack package:
Versions:
master, 2021-05-10, 2020-11-13, 2020-09-14, 2020-05-31, 2020-05-21, 2020-03-22, 2019-11-20, 2019-09-26, 2019-07-22, 2019-04-18, 2019-01-23, 2018-12-04
Build Dependencies:
cmake, ninja, python, llvm-openmp
Link Dependencies:
llvm-openmp
Description:
FBGEMM (Facebook GEneral Matrix Multiplication) is a low-precision, high-performance matrix-matrix multiplications and convolution library for server-side inference.

fca

Homepage:
Spack package:
Versions:
2.5.2431
Description:
Legacy interface for Mellanox Fabric Collective Accelerator (FCA). FCA is a MPI-integrated software package that utilizes CORE-Direct technology for implementing the MPI collective communications.

fcgi

Homepage:
Spack package:
Versions:
2.4.2, 2.4.1-SNAP-0910052249
Build Dependencies:
gnuconfig, autoconf, automake, libtool
Description:
FastCGI is simple because it is actually CGI with only a few extensions. Like CGI, FastCGI is also language-independent. For instance, FastCGI provides a way to improve the performance of the thousands of Perl applications that have been written for the Web.

fd-find

Homepage:
Spack package:
Versions:
7.4.0
Build Dependencies:
rust
Link Dependencies:
rust
Description:
A simple, fast and user-friendly alternative to 'find'.

fdb

Homepage:
Spack package:
Versions:
5.7.8
Build Dependencies:
cmake, ecbuild, eckit, eccodes, metkit, lustre
Link Dependencies:
eckit, eccodes, metkit, lustre
Description:
FDB (Fields DataBase) is a domain-specific object store developed at ECMWF for storing, indexing and retrieving GRIB data.

fdupes

Homepage:
Spack package:
Versions:
2.1.2
Build Dependencies:
gnuconfig, ncurses, pcre2
Link Dependencies:
ncurses, pcre2
Description:
FDUPES is a program for identifying or deleting duplicate files residing within specified directories.

feh

Homepage:
Spack package:
Versions:
3.3, 3.1.1
Build Dependencies:
imlib2, curl, libxinerama, libexif, libxt
Link Dependencies:
imlib2, curl, libxinerama, libexif, libxt
Description:
feh is an X11 image viewer aimed mostly at console users. Unlike most other viewers, it does not have a fancy GUI, but simply displays images. It is controlled via commandline arguments and configurable key/mouse actions.

fenics

Homepage:
Spack package:
Versions:
2019.1.0.post0, 2018.1.0.post1, 2017.2.0.post0, 2016.2.0
Build Dependencies:
cmake, python, py-fenics-fiat, py-fenics-dijitso, py-fenics-ufl, py-fenics-ffc, py-fenics-instant, eigen, pkgconfig, zlib, boost, mpi, hdf5, metis, parmetis, scotch, petsc, slepc, py-petsc4py, trilinos, vtk, suite-sparse, qt, py-pybind11, py-pip, py-wheel, py-setuptools, py-pkgconfig, py-sphinx
Link Dependencies:
eigen, zlib, boost, mpi, hdf5, metis, parmetis, scotch, petsc, slepc, py-petsc4py, trilinos, vtk, suite-sparse, qt
Run Dependencies:
python, py-fenics-fiat, py-fenics-dijitso, py-fenics-ufl, py-fenics-ffc, py-fenics-instant, py-pybind11, py-pkgconfig
Description:
FEniCS is organized as a collection of interoperable components that together form the FEniCS Project. These components include the problem- solving environment DOLFIN, the form compiler FFC, the finite element tabulator FIAT, the just-in-time compiler Instant / Dijitso, the code generation interface UFC, the form language UFL and a range of additional components.

fenics-basix

Homepage:
Spack package:
Versions:
main, 0.4.2, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cmake, xtl, xtensor, blas, lapack
Link Dependencies:
xtl, xtensor, blas, lapack
Description:
FEniCS element and quadrature runtime

fenics-dolfinx

Homepage:
Spack package:
Versions:
main, 0.4.1, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cmake, kahip, parmetis, scotch, pkgconfig, mpi, hdf5, boost, petsc, xtl, xtensor, slepc, adios2, fenics-ufcx, py-fenics-ffcx, fenics-basix
Link Dependencies:
kahip, parmetis, scotch, mpi, hdf5, boost, petsc, xtl, xtensor, slepc, adios2, fenics-ufcx, fenics-basix
Run Dependencies:
py-fenics-ffcx
Description:
Next generation FEniCS problem solving environment

fenics-ufcx

Homepage:
Spack package:
Versions:
main, 0.4.2
Build Dependencies:
cmake
Description:
FFCx provides the ufcx.h interface header for finite element kernels, used by DOLFINx. ufcx.h can be installed from the FFCx repo without making it dependent on Python.

feq-parse

Homepage:
Spack package:
Versions:
1.1.0, 1.0.2
Build Dependencies:
cmake
Description:
An equation parser Fortran class that is used to interpret and evaluate functions provided as strings.

fermi

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
zlib, sse2neon
Link Dependencies:
zlib, sse2neon
Run Dependencies:
perl
Description:
A WGS de novo assembler based on the FMD-index for large genomes.

fermikit

Homepage:
Spack package:
Versions:
2017-11-7
Build Dependencies:
zlib, sse2neon
Link Dependencies:
zlib, sse2neon
Description:
De novo assembly based variant calling pipeline for Illumina short reads

fermisciencetools

Homepage:
Spack package:
Versions:
11r5p3
Description:
The Fermi Science Tools consists of the basic tools necessary to analyze Fermi data. This is the binary version for Linux x86_64 with libc-2.17.

ferret

Homepage:
Spack package:
Versions:
7.6.0, 7.5.0, 7.4, 7.3, 7.2, 6.96
Build Dependencies:
hdf5, netcdf-c, netcdf-fortran, readline, zlib, libx11, curl
Link Dependencies:
hdf5, netcdf-c, netcdf-fortran, readline, zlib, libx11, curl
Description:
Ferret is an interactive computer visualization and analysis environment designed to meet the needs of oceanographers and meteorologists analyzing large and complex gridded data sets.

ffb

Homepage:
Spack package:
Versions:
8.1
Build Dependencies:
mpi, blas, scalapack
Link Dependencies:
mpi, blas, scalapack
Description:
Computational Fluid Dynamics Software for aeroacoustics

ffmpeg

Homepage:
Spack package:
Versions:
4.4.1, 4.3.2, 4.2.2, 4.1.1, 4.1, 3.2.4, 2.8.15, 1.0.10
Build Dependencies:
gnuconfig, alsa-lib, libiconv, yasm, zlib, aom, bzip2, fontconfig, freetype, fribidi, lame, libssh, libvorbis, libvpx, libwebp, libxv, libzmq, openjpeg, openssl, opus, sdl2, snappy, speex, xz, x264
Link Dependencies:
alsa-lib, libiconv, yasm, zlib, aom, bzip2, fontconfig, freetype, fribidi, lame, libssh, libvorbis, libvpx, libwebp, libxv, libzmq, openjpeg, openssl, opus, sdl2, snappy, speex, xz, x264
Description:
FFmpeg is a complete, cross-platform solution to record, convert and stream audio and video.

ffr

Homepage:
Spack package:
Versions:
3.1.004, 3.0_000
Build Dependencies:
mpi
Link Dependencies:
mpi, metis
Description:
FFR: FrontFlow/red, developed in Frontier Simulation Software for Industrial Science(FSIS) project supported by IT program of Ministry of Education, Culture, Sports, Science and Technology(MEXT), JAPAN.

ffsb

Homepage:
Spack package:
Versions:
5.2.1, 5.1.1, 5.1
Build Dependencies:
gnuconfig
Description:
The Flexible Filesystem Benchmark (FFSB) is a cross-platform filesystem performance measurement tool.

ffte

Homepage:
Spack package:
Versions:
7.0, 6.0, 5.0, 4.0, 3.0, 2.0, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Fastest Fourier Transform in the East. Provides FFT for powers of 2, 3, and 5 lengths in one, two, and three dimensions. Support for vector hardware, MPI, and CUDA Fortran is also included.

fftw

Homepage:
Spack package:
Versions:
3.3.10, 3.3.9, 3.3.8, 3.3.7, 3.3.6-pl2, 3.3.5, 3.3.4, 2.1.5
Build Dependencies:
gnuconfig, mpi, llvm-openmp, automake, autoconf, libtool
Link Dependencies:
mpi, llvm-openmp
Description:
FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.

fftx

Homepage:
Spack package:
Versions:
develop, main, 1.0.3
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, spiral-software, spiral-package-fftx, spiral-package-simt
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, spiral-software, spiral-package-fftx, spiral-package-simt
Description:
FFTX is the exascale follow-on to the FFTW open source discrete FFT package for executing the Fast Fourier Transform as well as higher-level operations composed of linear operations combined with DFT transforms.

fgsl

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, gsl
Link Dependencies:
gsl
Description:
Fortran interface to the GNU Scientific Library

fides

Homepage:
Spack package:
Versions:
master, 1.1.0, 1.0.0
Build Dependencies:
cmake, mpi, adios2, vtk-m
Link Dependencies:
mpi, adios2, vtk-m
Description:
A library that provides a schema for ADIOS2 streams.

figlet

Homepage:
Spack package:
Versions:
2.2.5, 2.2.4, 2.2.3
Description:
FIGlet is a program that creates large characters out of ordinary screen characters.

figtree

Homepage:
Spack package:
Versions:
1.4.3
Run Dependencies:
java
Description:
FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures. As with most of my programs, it was written for my own needs so may not be as polished and feature-complete as a commercial program. In particular it is designed to display summarized and annotated trees produced by BEAST.

file

Homepage:
Spack package:
Versions:
5.40, 5.39, 5.38, 5.37
Build Dependencies:
gnuconfig, bzip2, xz, zlib
Link Dependencies:
bzip2, xz, zlib
Description:
The file command is "a file type guesser", that is, a command-line tool that tells you in words what kind of data a file contains

filebench

Homepage:
Spack package:
Versions:
1.4.9.1, 1.4.9
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, flex, bison
Description:
Filebench is a file system and storage benchmark that can generate a large variety of workloads. Unlike typical benchmarks it is extremely flexible and allows to specify application's I/O behavior using its extensive Workload Model Language (WML). Users can either describe desired workloads from scratch or use(with or without modifications) workload personalities shipped with Filebench(e.g., mail-, web-, file-, and database-server workloads). Filebench is equally good for micro and macro-benchmarking, quick to setup, and relatively easy to use.

filo

Homepage:
Spack package:
Versions:
main
Build Dependencies:
cmake, mpi, axl, kvtree, spath
Link Dependencies:
mpi, axl, kvtree, spath
Description:
File flush and fetch, with MPI

filtlong

Homepage:
Spack package:
Versions:
0.2.0, 0.1.1
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset.

fimpute

Homepage:
Spack package:
Versions:
2014-01
Description:
FImpute uses an overlapping sliding window approach to efficiently exploit relationships or haplotype similarities between target and reference individuals.

find-circ

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pysam, py-numpy
Run Dependencies:
python, py-pysam, py-numpy
Description:
Find-circ is a collection of python scripts detecting head-to-tail spliced (back-spliced) sequencing reads, indicative of circular RNA (circRNA) in RNA-seq data.

findbugs

Homepage:
Spack package:
Versions:
3.0.1, 3.0.0, 2.0.3
Run Dependencies:
java
Description:
a program which uses static analysis to look for bugs in Java code. It is free software, distributed under the terms of the Lesser GNU Public License.

findutils

Homepage:
Spack package:
Versions:
4.9.0, 4.8.0, 4.7.0, 4.6.0, 4.4.2, 4.4.1, 4.4.0, 4.2.33, 4.2.32, 4.2.31, 4.2.30, 4.2.29, 4.2.28, 4.2.27, 4.2.26, 4.2.25, 4.2.23, 4.2.20, 4.2.18, 4.2.15, 4.1.20, 4.1
Build Dependencies:
gnuconfig
Description:
The GNU Find Utilities are the basic directory searching utilities of the GNU operating system.

fio

Homepage:
Spack package:
Versions:
3.26, 3.25, 3.19, 3.16, 2.19
Build Dependencies:
gnuconfig, gtkplus, cairo, libaio, py-sphinx
Link Dependencies:
gtkplus, cairo, libaio
Description:
Flexible I/O Tester. Fio spawns a number of threads or processes doing a particular type of I/O action as specified by the user. fio takes a number of global parameters, each inherited by the thread unless otherwise parameters given to them overriding that setting is given.

fipscheck

Homepage:
Spack package:
Versions:
7.0.0.398, 7.0.0.397, 7.0.0.396
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig
Description:
The integrity check is only one of many requirements needed for validation of a software cryptographic module.

fish

Homepage:
Spack package:
Versions:
master, 3.4.1, 3.3.1, 3.1.2, 3.1.0, 3.0.0
Build Dependencies:
cmake, ncurses, pcre2, gettext, py-sphinx
Link Dependencies:
ncurses, pcre2, gettext
Test Dependencies:
python, py-pexpect
Description:
fish is a smart and user-friendly command line shell for OS X, Linux, and the rest of the family.

fixesproto

Homepage:
Spack package:
Versions:
5.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Fixes Extension. The extension makes changes to many areas of the protocol to resolve issues raised by application interaction with core protocol mechanisms that cannot be adequately worked around on the client side of the wire.

fj

Homepage:
Spack package:
Description:
The Fujitsu compiler system is a high performance, production quality code generation tool designed for high performance parallel computing workloads.

fjcontrib

Homepage:
Spack package:
Versions:
1.045, 1.044, 1.043, 1.042, 1.041, 1.040, 1.039, 1.038, 1.037, 1.036, 1.035, 1.034, 1.033, 1.032, 1.031, 1.030, 1.029, 1.028, 1.027, 1.026, 1.025, 1.024, 1.023, 1.022, 1.021, 1.020, 1.019, 1.018, 1.017, 1.016, 1.015, 1.014, 1.013, 1.012, 1.011, 1.010, 1.009, 1.008, 1.007, 1.006, 1.005, 1.004, 1.003, 1.002, 1.001, 1.000, 0.001, 0.000
Build Dependencies:
gnuconfig, fastjet
Link Dependencies:
fastjet
Description:
3rd party extensions of FastJet

fl

Homepage:
Spack package:
Versions:
0.79.47
Description:
Fawlty Language is an IDL8 (Interactive Data Language) compatible compiler.

flac

Homepage:
Spack package:
Versions:
1.3.3, 1.3.2, 1.3.1, 1.3.0
Build Dependencies:
gnuconfig, libvorbis, id3lib
Link Dependencies:
libvorbis, id3lib
Description:
Encoder/decoder for the Free Lossless Audio Codec

flann

Homepage:
Spack package:
Versions:
1.9.1, 1.8.5, 1.8.4, 1.8.1, 1.8.0
Build Dependencies:
cmake, python, py-numpy, matlab, cuda, mpi, hdf5, boost, texlive
Link Dependencies:
cuda, mpi, hdf5, boost, texlive
Run Dependencies:
python, py-numpy, matlab
Test Dependencies:
hdf5, googletest
Description:
FLANN is a library for performing fast approximate nearest neighbor searches in high dimensional spaces. It contains a collection of algorithms we found to work best for nearest neighbor search and a system for automatically choosing the best algorithm and optimum parameters depending on the dataset. FLANN is written in C++ and contains bindings for the following languages: C, MATLAB and Python.

flap

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Description:
Fortran command Line Arguments Parser

flash

Homepage:
Spack package:
Versions:
1.2.11
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
FLASH (Fast Length Adjustment of SHort reads) is a very fast and accurate software tool to merge paired-end reads from next-generation sequencing experiments.

flashdimmsim

Homepage:
Spack package:
Versions:
master
Description:
FlashDIMMSim: a reasonably accurate flash DIMM simulator.

flatbuffers

Homepage:
Spack package:
Versions:
2.0.6, 2.0.0, 1.12.0, 1.11.0, 1.10.0, 1.9.0, 1.8.0
Build Dependencies:
cmake, python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Memory Efficient Serialization Library

flatcc

Homepage:
Spack package:
Versions:
master, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.3, 0.4.2, 0.4.1
Build Dependencies:
cmake
Description:
FlatBuffers C Compiler (flatcc), a memory-efficient serialization library, is implemented as a standalone tool instead of extending Googles flatc compiler in order to have a pure portable C library implementation of the schema compiler that is designed to fail graciously on abusive input in long running processes. It is also believed a C version may help provide schema parsing to other language interfaces that find interfacing with C easier than C++.

flcl

Homepage:
Spack package:
Versions:
develop, 0.99.0, 0.5.0, 0.4.0, 0.3
Build Dependencies:
cmake, kokkos
Link Dependencies:
kokkos
Description:
API for Fortran to C++ and C++ to Fortran multi-dimensional array interoperability using Kokkos.

flecsale

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, pkgconfig, flecsi, python, openssl, boost, exodusii
Link Dependencies:
flecsi, python, openssl, boost, exodusii
Description:
Flecsale is an ALE code based on FleCSI

flecsi

Homepage:
Spack package:
Versions:
develop, 2.1.0, 1.4.develop, 1.4.2, flecsph
Build Dependencies:
cuda, cmake, caliper, graphviz, hdf5, metis, parmetis, boost, openmpi, legion, cinch, mpi, hpx, googletest, python, doxygen, llvm, pfunit, py-gcovr, kokkos, mpich, lanl-cmake-modules
Link Dependencies:
cuda, cmake, caliper, graphviz, hdf5, metis, parmetis, boost, openmpi, legion, mpi, hpx, googletest, python, doxygen, llvm, pfunit, py-gcovr, kokkos, mpich, lanl-cmake-modules
Description:
FleCSI is a compile-time configurable framework designed to support multi-physics application development. As such, FleCSI attempts to provide a very general set of infrastructure design patterns that can be specialized and extended to suit the needs of a broad variety of solver and data requirements. Current support includes multi-dimensional mesh topology, mesh geometry, and mesh adjacency information, n-dimensional hashed-tree data structures, graph partitioning interfaces,and dependency closures.

flecsph

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, boost, mpi, hdf5, flecsi, gsl, googletest, pkgconfig
Link Dependencies:
boost, mpi, hdf5, flecsi, gsl, googletest
Description:
FleCSPH is a multi-physics compact application that exercises FleCSI parallel data structures for tree-based particle methods. In particular, FleCSPH implements a smoothed-particle hydrodynamics (SPH) solver for the solution of Lagrangian problems in astrophysics and cosmology. FleCSPH includes support for gravitational forces using the fast multipole method (FMM).

fleur

Homepage:
Spack package:
Versions:
develop, 5.1, 5.0, 4.0, 3.1
Build Dependencies:
cmake, python, blas, lapack, libxml2, mpi, intel-mkl, fftw-api, scalapack, libxc, hdf5, magma, wannier90, spfft, elpa
Link Dependencies:
blas, lapack, libxml2, mpi, intel-mkl, fftw-api, scalapack, libxc, hdf5, magma, wannier90, spfft, elpa
Description:
FLEUR (Full-potential Linearised augmented plane wave in EURope) is a code family for calculating groundstate as well as excited-state properties of solids within the context of density functional theory (DFT).

flex

Homepage:
Spack package:
Versions:
2.6.4, 2.6.3, 2.6.1, 2.6.0, 2.5.39
Build Dependencies:
gnuconfig, bison, gettext, help2man, findutils, diffutils, m4, autoconf, automake, libtool
Description:
Flex is a tool for generating scanners.

flexi

Homepage:
Spack package:
Versions:
master, 21.03.0
Build Dependencies:
cmake, mpi, hdf5, lapack, zlib, fftw
Link Dependencies:
mpi, hdf5, lapack, zlib, fftw
Description:
Open Source High-Order Unstructured Discontinuous Galerkin Fluid Dynamics Solver

flexiblas

Homepage:
Spack package:
Versions:
3.0.4, 3.0.3
Build Dependencies:
cmake
Description:
A BLAS and LAPACK wrapper library with runtime exchangable backends

flibcpp

Homepage:
Spack package:
Versions:
1.0.1, 0.5.2, 0.5.1, 0.5.0, 0.4.1, 0.4.0, 0.3.1
Build Dependencies:
cmake, swig, py-sphinx
Description:
Fortran bindings to the C++ Standard Library.

flint

Homepage:
Spack package:
Versions:
develop, 2.5.2, 2.4.5
Build Dependencies:
autoconf, gmp, mpfr
Link Dependencies:
gmp, mpfr
Description:
FLINT (Fast Library for Number Theory).

flit

Homepage:
Spack package:
Versions:
develop, 2.1.0
Build Dependencies:
gmake
Run Dependencies:
python, py-toml, py-pyelftools, gmake, sqlite
Description:
Floating-point Litmus Tests (FLiT) is a C++ test infrastructure for detecting variability in floating-point code caused by variations in compiler code generation, hardware and execution environments.

fltk

Homepage:
Spack package:
Versions:
master, 1.3.7, 1.3.3
Build Dependencies:
libx11, gl, libxft
Link Dependencies:
libx11, gl, libxft
Description:
FLTK (pronounced "fulltick") is a cross-platform C++ GUI toolkit for UNIX/Linux (X11), Microsoft Windows, and MacOS X. FLTK provides modern GUI functionality without the bloat and supports 3D graphics via OpenGL and its built-in GLUT emulation. FLTK is designed to be small and modular enough to be statically linked, but works fine as a shared library. FLTK also includes an excellent UI builder called FLUID that can be used to create applications in minutes.

flume

Homepage:
Spack package:
Versions:
1.9.0, 1.8.0, 1.7.0, 1.6.0, 1.5.2
Run Dependencies:
java
Description:
Apache Flume is a distributed, reliable, and available service for efficiently collecting, aggregating, and moving large amounts of log data. It has a simple and flexible architecture based on streaming data flows. It is robust and fault tolerant with tunable reliability mechanisms and many failover and recovery mechanisms. The system is centrally managed and allows for intelligent dynamic management. It uses a simple extensible data model that allows for online analytic application.

flux-core

Homepage:
Spack package:
Versions:
master, 0.38.0, 0.37.0, 0.36.0, 0.35.0, 0.34.0, 0.33.0, 0.32.0, 0.31.0, 0.30.0, 0.29.0, 0.28.0, 0.27.0, 0.26.0, 0.25.0, 0.24.0, 0.23.0, 0.22.0, 0.21.0, 0.20.0, 0.19.0, 0.18.0, 0.17.0, 0.16.0, 0.15.0
Build Dependencies:
gnuconfig, libarchive, ncurses, libzmq, czmq, hwloc, lua, lua-luaposix, python, py-cffi, py-six, py-pyyaml, py-jsonschema, jansson, pkgconfig, lz4, asciidoc, py-docutils, autoconf, automake, libtool
Link Dependencies:
libarchive, ncurses, libzmq, czmq, hwloc, lua, lua-luaposix, python, jansson, pkgconfig, lz4
Run Dependencies:
lua, python, py-cffi, py-six, py-pyyaml, py-jsonschema
Test Dependencies:
mpich, valgrind, jq
Description:
A next-generation resource manager (pre-alpha)

flux-pmix

Homepage:
Spack package:
Versions:
main, 0.2.0
Build Dependencies:
gnuconfig, flux-core, pmix, openmpi, pkgconfig, autoconf, automake, libtool
Link Dependencies:
flux-core, pmix, openmpi
Description:
A flux shell plugin to bootstrap openmpi v5+

flux-sched

Homepage:
Spack package:
Versions:
master, 0.22.0, 0.21.1, 0.21.0, 0.20.0, 0.19.0, 0.18.0, 0.17.0, 0.16.0, 0.15.0, 0.14.0, 0.13.0, 0.12.0, 0.11.0, 0.10.0, 0.9.0, 0.8.0
Build Dependencies:
gnuconfig, boost, py-pyyaml, py-jsonschema, libedit, libxml2, yaml-cpp, uuid, pkgconfig, flux-core, autoconf, automake, libtool
Link Dependencies:
boost, libedit, libxml2, yaml-cpp, uuid, pkgconfig, flux-core
Run Dependencies:
py-pyyaml, py-jsonschema, flux-core
Description:
A scheduler for flux-core (pre-alpha)

fluxbox

Homepage:
Spack package:
Versions:
1.3.7
Build Dependencies:
gnuconfig, pkgconfig, freetype, libxrender, libxext, expat, libx11
Link Dependencies:
freetype, libxrender, libxext, expat, libx11
Description:
Fluxbox is a windowmanager for X that was based on the Blackbox 0.61.1 code. It is very light on resources and easy to handle but yet full of features to make an easy, and extremely fast, desktop experience.

fms

Homepage:
Spack package:
Versions:
2022.02, 2022.01, 2021.04, 2021.03.01, 2021.03, 2021.02.01, 2021.02, 2021.01, 2020.04.02, 2020.04.01
Build Dependencies:
cmake, netcdf-c, netcdf-fortran, mpi, libyaml
Link Dependencies:
netcdf-c, netcdf-fortran, mpi, libyaml
Description:
GFDL's Flexible Modeling System (FMS) is a software environment that supports the efficient development, construction, execution, and scientific interpretation of atmospheric, oceanic, and climate system models.

fmt

Homepage:
Spack package:
Versions:
8.1.1, 8.1.0, 8.0.1, 7.1.3, 7.1.2, 7.1.0, 6.1.2, 5.3.0, 5.2.1, 5.2.0, 5.1.0, 5.0.0, 4.1.0, 4.0.0, 3.0.2, 3.0.1, 3.0.0
Build Dependencies:
cmake
Description:
fmt (formerly cppformat) is an open-source formatting library. It can be used as a safe alternative to printf or as a fast alternative to C++ IOStreams.

foam-extend

Homepage:
Spack package:
Versions:
4.0, 3.2, 3.1, 3.0
Build Dependencies:
mpi, python, zlib, flex, cmake, scotch, metis, parmetis, parmgridgen, paraview
Link Dependencies:
mpi, python, zlib, scotch, metis, parmetis, paraview
Description:
The Extend Project is a fork of the OpenFOAM opensource library for Computational Fluid Dynamics (CFD). This offering is not approved or endorsed by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark.

folly

Homepage:
Spack package:
Versions:
2021.05.24.00
Build Dependencies:
cmake, pkgconfig, boost, gflags, glog, double-conversion, libevent, fmt, libdwarf, elfutils, libunwind
Link Dependencies:
boost, gflags, glog, double-conversion, libevent, fmt, libdwarf, elfutils, libunwind
Description:
Folly (acronymed loosely after Facebook Open Source Library) is a library of C++11 components designed with practicality and efficiency in mind. Folly contains a variety of core library components used extensively at Facebook. In particular, it's often a dependency of Facebook's other open source C++ efforts and place where those projects can share code.

font-util

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1
Build Dependencies:
gnuconfig, autoconf, automake, pkgconfig, util-macros, bdftopcf, mkfontscale, mkfontdir
Description:
X.Org font package creation/installation utilities and fonts.

fontcacheproto

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
gnuconfig
Description:
X.org FontcacheProto protocol headers.

fontconfig

Homepage:
Spack package:
Versions:
2.13.94, 2.13.93, 2.13.1, 2.12.3, 2.12.1, 2.11.1
Build Dependencies:
gnuconfig, freetype, gperf, libxml2, pkgconfig, font-util, uuid, python
Link Dependencies:
freetype, libxml2, font-util, uuid
Description:
Fontconfig is a library for configuring/customizing font access

fontsproto

Homepage:
Spack package:
Versions:
2.1.3
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Fonts Extension.

fonttosfnt

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, freetype, libfontenc, xproto, pkgconfig, util-macros
Link Dependencies:
freetype, libfontenc, xproto
Description:
Wrap a bitmap font in a sfnt (TrueType) wrapper.

form

Homepage:
Spack package:
Versions:
4.2.1, 4.1-20131025
Build Dependencies:
gnuconfig
Link Dependencies:
gmp, zlib, mpi
Description:
FORM is a Symbolic Manipulation System.

formetis

Homepage:
Spack package:
Versions:
0.0.2
Build Dependencies:
cmake, metis, parmetis, mpi, swig
Link Dependencies:
metis, parmetis, mpi, swig
Description:
Automated Fortran bindings to METIS and ParMETIS.

fortran

Homepage:
Spack package:
Description:
Virtual package for the Fortran language.

fortrilinos

Homepage:
Spack package:
Versions:
master, 2.0.0, 2.0.dev3, 2.0.dev2
Build Dependencies:
cmake, trilinos
Link Dependencies:
trilinos
Description:
ForTrilinos provides a set of Fortran-2003 wrappers to the Trilinos solver library. Note that most properties are *transitive* from the underlying Trilinos configuration. For example, MPI is enabled if and only if the linked Trilinos version has it, so this package does not provide an indepdent variant. Instead, use ``fortrilinos ^trilinos~mpi`` to disable MPI support. Since Trilinos enables a bunch of upstream dependencies by default, it might be worthwhile to disable them:: spack install fortrilinos ^trilinos@12.18.1+nox+stratimikos ~boost~exodus~glm~gtest~hdf5~hypre~matio~metis~mumps~netcdf~suite-sparse

fossil

Homepage:
Spack package:
Versions:
2.18
Build Dependencies:
gnuconfig, openssl
Link Dependencies:
openssl
Description:
Fossil. Fossil is a simple, high-reliability, distributed software configuration management system.

foundationdb

Homepage:
Spack package:
Versions:
6.3.4, 6.3.3, 6.3.2, 6.3.1, 6.3.0, 6.2.24
Build Dependencies:
cmake, mono, boost, ninja
Link Dependencies:
mono, boost
Description:
FoundationDB is a distributed database designed to handle large volumes of structured data across clusters of commodity servers. It organizes data as an ordered key-value store and employs ACID transactions for all operations.

fox

Homepage:
Spack package:
Versions:
1.7.67, 1.6.57
Build Dependencies:
gnuconfig, bzip2, jpeg, libpng, libtiff, zlib, libx11, libsm, libxft, libxext, libxcursor, libxi, libxrandr, gl
Link Dependencies:
bzip2, jpeg, libpng, libtiff, zlib, libx11, libsm, libxft, libxext, libxcursor, libxi, libxrandr, gl, glu
Description:
FOX is a C++ based Toolkit for developing Graphical User Interfaces easily and effectively. It offers a wide, and growing, collection of Controls, and provides state of the art facilities such as drag and drop, selection, as well as OpenGL widgets for 3D graphical manipulation. FOX also implements icons, images, and user-convenience features such as status line help, and tooltips. Tooltips may even be used for 3D objects!

fp16

Homepage:
Spack package:
Versions:
master, 2020-05-14, 2018-11-28, 2018-10-10, 2018-02-25
Build Dependencies:
cmake, ninja
Description:
FP16 is a header-only library for conversion to/from half-precision floating point formats

fpc

Homepage:
Spack package:
Versions:
3.0.2
Description:
Free Pascal is a 32, 64 and 16 bit professional Pascal compiler.

fpchecker

Homepage:
Spack package:
Versions:
master, 0.3.5, 0.3.4
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Run Dependencies:
python
Description:
FPChecker (Floating-Point Checker) is a dynamic analysis tool to detect floating-point errors in HPC applications.

fping

Homepage:
Spack package:
Versions:
4.2, 4.1, 4.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
High performance ping tool.

fplll

Homepage:
Spack package:
Versions:
5.4.1, 5.4.0, 5.3.3, 5.3.2, 5.3.1, 5.3.0, 5.2.1, 5.2.0, 5.1.0, 5.0.3
Build Dependencies:
gnuconfig, gmp, mpfr
Link Dependencies:
gmp, mpfr
Description:
fplll contains implementations of several lattice algorithms. The implementation relies on floating-point orthogonalization, and LLL is central to the code, hence the name.

fpm

Homepage:
Spack package:
Versions:
0.5.0, 0.4.0, 0.3.0
Build Dependencies:
curl, git
Description:
Fortran Package Manager (fpm) is a package manager and build system for Fortran. Its key goal is to improve the user experience of Fortran programmers. It does so by making it easier to build your Fortran program or library, run the executables, tests, and examples, and distribute it as a dependency to other Fortran projects.

fpocket

Homepage:
Spack package:
Versions:
master
Build Dependencies:
netcdf-c
Link Dependencies:
netcdf-c
Description:
fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation.

fqtrim

Homepage:
Spack package:
Versions:
0.9.7
Description:
fqtrim is a versatile stand-alone utility that can be used to trim adapters, poly-A tails, terminal unknown bases (Ns) and low quality 3' regions in reads from high-throughput next-generation sequencing machines.

fr-hit

Homepage:
Spack package:
Versions:
0.7.1-2013-02-20
Build Dependencies:
perl, python
Link Dependencies:
perl, python
Description:
An efficient algorithm for fragment recruitment for next generation sequences against microbial reference genomes.

fraggenescan

Homepage:
Spack package:
Versions:
1.31, 1.30
Description:
FragGeneScan is an application for finding (fragmented) genes in short reads. It can also be applied to predict prokaryotic genes in incomplete assemblies or complete genomes.

freebayes

Homepage:
Spack package:
Versions:
1.3.6, 1.3.5, 1.1.0
Build Dependencies:
meson, ninja, cmake, zlib, pkgconfig, htslib, xz, parallel, vcftools, bc, samtools
Link Dependencies:
zlib, htslib, xz, parallel, vcftools, bc, samtools
Description:
Bayesian haplotype-based genetic polymorphism discovery and genotyping.

freefem

Homepage:
Spack package:
Versions:
4.10, 4.9, 4.8, 4.7-1, 4.7, 4.6, 4.5
Build Dependencies:
gnuconfig, mpi, slepc
Link Dependencies:
mpi, slepc
Description:
FreeFEM is a popular 2D and 3D partial differential equations (PDE) solver. It allows you to easily implement your own physics modules using the provided FreeFEM language. FreeFEM offers a large list of finite elements, like the Lagrange, Taylor-Hood, etc., usable in the continuous and discontinuous Galerkin method framework.

freeglut

Homepage:
Spack package:
Versions:
3.2.2, 3.2.1, 3.0.0
Build Dependencies:
cmake, pkgconfig, gl, glu, libx11, libxrandr, libxi, libxxf86vm, xrandr, inputproto
Link Dependencies:
gl, glu, libx11, libxrandr, libxi, libxxf86vm, xrandr, inputproto
Description:
FreeGLUT is a free-software/open-source alternative to the OpenGL Utility Toolkit (GLUT) library

freeimage

Homepage:
Spack package:
Versions:
3.18.0
Description:
FreeImage is an Open Source library project for developers who would like to support popular graphics image formats like PNG, BMP, JPEG, TIFF and others as needed by today's multimedia applications

freeipmi

Homepage:
Spack package:
Versions:
1.6.4
Build Dependencies:
gnuconfig, libgcrypt
Link Dependencies:
libgcrypt
Description:
FreeIPMI provides in-band and out-of-band IPMI software based on the IPMI v1.5/2.0 specification. The IPMI specification defines a set of interfaces for platform management and is implemented by a number vendors for system management. The features of IPMI that most users will be interested in are sensor monitoring, system event monitoring, power control, and serial-over-LAN (SOL). The FreeIPMI tools and libraries listed below should provide users with the ability to access and utilize these and many other features. A number of useful features for large HPC or cluster environments have also been implemented into FreeIPMI. See the README or FAQ for more info.

freetype

Homepage:
Spack package:
Versions:
2.11.1, 2.11.0, 2.10.4, 2.10.2, 2.10.1, 2.10.0, 2.9.1, 2.7.1, 2.7, 2.5.3
Build Dependencies:
gnuconfig, bzip2, libpng, pkgconfig
Link Dependencies:
bzip2, libpng
Description:
FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.

freexl

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig
Description:
FreeXL is an open source library to extract valid data from within an Excel (.xls) spreadsheet.

fribidi

Homepage:
Spack package:
Versions:
1.0.12, 1.0.8, 1.0.5
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
GNU FriBidi: The Free Implementation of the Unicode Bidirectional Algorithm.

frontier-client

Homepage:
Spack package:
Versions:
2_9_1, 2_9_0, 2_8_21, 2_8_20
Build Dependencies:
pacparser, expat, openssl
Link Dependencies:
pacparser, expat, openssl
Description:
The Frontier distributed database caching system distributes data from data sources to many client systems around the world. The name comes from "N Tier" where N is any number and tiers are layers of locations of distribution.

frontistr

Homepage:
Spack package:
Versions:
master, 5.3, 5.2, 5.1.1, 5.1, 5.0
Build Dependencies:
cmake, mpi, blas, lapack, scalapack, revocap-refiner, metis, mumps, trilinos
Link Dependencies:
mpi, blas, lapack, scalapack, revocap-refiner, metis, mumps, trilinos
Description:
Open-Source Large-Scale Parallel FEM Program for Nonlinear Structural Analysis

fseq

Homepage:
Spack package:
Versions:
1.84
Build Dependencies:
java
Run Dependencies:
java
Description:
F-Seq: A Feature Density Estimator for High-Throughput Sequence Tags

fsl

Homepage:
Spack package:
Versions:
6.0.5, 6.0.4, 5.0.10
Build Dependencies:
cuda, python, expat, libx11, glu, libiconv, openblas, vtk
Link Dependencies:
cuda, expat, libx11, glu, libiconv, openblas, vtk
Run Dependencies:
python
Description:
FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data.

fslsfonts

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libfs, xproto, pkgconfig, util-macros
Link Dependencies:
libfs, xproto
Description:
fslsfonts produces a list of fonts served by an X font server.

fstobdf

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libx11, libfs, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libfs, xproto
Description:
The fstobdf program reads a font from a font server and prints a BDF file on the standard output that may be used to recreate the font. This is useful in testing servers, debugging font metrics, and reproducing lost BDF files.

fstrack

Homepage:
Spack package:
Versions:
0.5.3.092918
Build Dependencies:
gmt, netcdf-c
Link Dependencies:
gmt, netcdf-c
Description:
Package with tools to analyze symmetry components of elastic tensors, predict synthetic waveforms and compute automated shear wave splitting along ray paths, and to track finite strain and predict LPO from mantle flow given on GMT/netcdf grds.

ftgl

Homepage:
Spack package:
Versions:
master, 2.4.0, 2.3.1
Build Dependencies:
cmake, pkgconfig, gl, glu, freetype
Link Dependencies:
gl, glu, freetype
Description:
Library to use arbitrary fonts in OpenGL applications.

ftjam

Homepage:
Spack package:
Versions:
2.5.2
Build Dependencies:
gnuconfig, bison
Link Dependencies:
bison
Description:
Jam is a small open-source build tool that can be used as a replacement for Make.

ftk

Homepage:
Spack package:
Versions:
master, 0.0.5, 0.0.4, dev
Build Dependencies:
cmake, adios2, cuda, hdf5, gmp, mpi, netcdf-c, vtk
Link Dependencies:
adios2, cuda, hdf5, gmp, mpi, netcdf-c, vtk
Description:
FTK is a library that simplifies, scales, and delivers feature tracking algorithms for scientific data.

ftobjectlibrary

Homepage:
Spack package:
Versions:
main
Build Dependencies:
cmake
Description:
FTObjectLibrary provides a collection of reference counted Fortran 2003 classes to facilitate writing generic object oriented Fortran programs.

ftxui

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
cmake
Description:
Functional Terminal (X) User interface. A simple C++ library for terminal based user interfaces.

fujitsu-fftw

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
gnuconfig, mpi, llvm-openmp, texinfo
Link Dependencies:
mpi, llvm-openmp, texinfo
Description:
FFTW (Fujitsu Optimized version) is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various special cases thereof. It is an open-source implementation of the Fast Fourier transform algorithm. It can compute transforms of real and complex-values arrays of arbitrary size and dimension. Fujitsu Optimized FFTW is the optimized FFTW implementation targeted for A64FX CPUs. For single precision build, please use precision value as float. Example : spack install fujitsufftw precision=float

fujitsu-frontistr

Homepage:
Spack package:
Versions:
master, 5.2, 5.0
Build Dependencies:
cmake, mpi, blas, lapack, scalapack, revocap-refiner, metis, mumps, trilinos
Link Dependencies:
mpi, blas, lapack, scalapack, revocap-refiner, metis, mumps, trilinos
Description:
This is a fork repository of the FrontISTR tuned for A64FX.

fujitsu-mpi

Homepage:
Spack package:
Description:
Fujitsu MPI implementation only for Fujitsu compiler.

fujitsu-ssl2

Homepage:
Spack package:
Description:
Fujitsu SSL2 (Scientific Subroutine Library II) is Math library for Fujitsu compiler. Fujitsu SSL2 implementation only for Fujitsu compiler. Fujitsu SSL2 provides the function of blas, lapack and scalapack.

fullock

Homepage:
Spack package:
Versions:
1.0.39, 1.0.36, 1.0.35, 1.0.34, 1.0.33, 1.0.32
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
FULLOCK is a lock library provided by Yahoo! JAPAN, that is very fast and runs on user level.This library provides two lock type.

funhpc

Homepage:
Spack package:
Versions:
develop, 1.3.0
Build Dependencies:
cmake, cereal, googletest, hwloc, jemalloc, mpi, qthreads
Link Dependencies:
cereal, googletest, hwloc, jemalloc, mpi, qthreads
Description:
FunHPC: Functional HPC Programming

fuse-overlayfs

Homepage:
Spack package:
Versions:
1.7.1, 1.7, 1.6, 1.5.0, 1.4.0, 1.3.0, 1.2.0, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, fuse
Link Dependencies:
fuse
Description:
An implementation of overlay+shiftfs in FUSE for rootless containers.

fxdiv

Homepage:
Spack package:
Versions:
master, 2020-04-17, 2018-11-16, 2018-02-24
Build Dependencies:
cmake, ninja, python
Description:
Header-only library for division via fixed-point multiplication by inverse.

fxt

Homepage:
Spack package:
Versions:
0.3.14, 0.3.5, 0.3.4, 0.3.3
Build Dependencies:
gnuconfig, gawk, autoconf, automake, libtool, m4
Description:
Fast User/Kernel Tracing FxT stands for both FKT (Fast Kernel Tracing) and FUT (Fast User Tracing). This library provides efficient support for recording traces.

fyba

Homepage:
Spack package:
Versions:
4.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
OpenFYBA is the source code release of the FYBA library, distributed by the National Mapping Authority of Norway (Statens kartverk) to read and write files in the National geodata standard format SOSI.

fzf

Homepage:
Spack package:
Versions:
0.22.0, 0.17.5, 0.17.4, 0.17.3, 0.17.1, 0.17.0-2, 0.17.0, 0.16.11, 0.16.10, 0.16.9, 0.16.8
Build Dependencies:
go
Description:
fzf is a general-purpose command-line fuzzy finder.

g2

Homepage:
Spack package:
Versions:
3.4.5, 3.4.3
Build Dependencies:
cmake, jasper, libpng
Link Dependencies:
jasper, libpng
Description:
Utilities for coding/decoding GRIB2 messages. This library contains Fortran 90 decoder/encoder routines for GRIB edition 2, as well as indexing/searching utility routines. This is part of the NCEPLIBS project.

g2c

Homepage:
Spack package:
Versions:
1.6.4, 1.6.2
Build Dependencies:
cmake, libpng, jasper, openjpeg
Link Dependencies:
libpng, jasper, openjpeg
Description:
This library contains C decoder/encoder routines for GRIB edition 2. This is part of NOAA's NCEPLIBS project.

g2o

Homepage:
Spack package:
Versions:
master, 20200410_git
Build Dependencies:
cmake, ceres-solver, freeglut, suite-sparse, qt, libqglviewer
Link Dependencies:
eigen, ceres-solver, freeglut, suite-sparse, qt, libqglviewer
Description:
g2o is an open-source C++ framework for optimizing graph-based nonlinear error functions. g2o has been designed to be easily extensible to a wide range of problems and a new problem typically can be specified in a few lines of code. The current implementation provides solutions to several variants of SLAM and BA.

g2tmpl

Homepage:
Spack package:
Versions:
1.10.2, 1.10.1, 1.10.0
Build Dependencies:
cmake
Description:
Utilities for GRIB2 templates. This is part of NOAA's NCEPLIBS project.

g4abla

Homepage:
Spack package:
Versions:
3.1, 3.0
Description:
Geant4 data for nuclear shell effects in INCL/ABLA hadronic mode

g4emlow

Homepage:
Spack package:
Versions:
8.0, 7.13, 7.9.1, 7.9, 7.7, 7.3, 6.50
Description:
Geant4 data files for low energy electromagnetic processes.

g4ensdfstate

Homepage:
Spack package:
Versions:
2.3, 2.2, 2.1
Description:
Geant4 data for nuclides properties

g4incl

Homepage:
Spack package:
Versions:
1.0
Description:
Geant4 data for evaluated particle cross-sections on natural composition of elements

g4ndl

Homepage:
Spack package:
Versions:
4.6, 4.5
Description:
Geant4 Neutron data files with thermal cross sections

g4neutronxs

Homepage:
Spack package:
Versions:
1.4
Description:
Geant4 data for evaluated neutron cross-sections on natural composition of elements

g4particlexs

Homepage:
Spack package:
Versions:
4.0, 3.1.1, 3.1, 2.1, 1.1
Description:
Geant4 data for evaluated particle cross-sections on natural composition of elements

g4photonevaporation

Homepage:
Spack package:
Versions:
5.7, 5.5, 5.3, 5.2, 4.3.2
Description:
Geant4 data for photon evaporation

g4pii

Homepage:
Spack package:
Versions:
1.3
Description:
Geant4 data for shell ionisation cross-sections

g4radioactivedecay

Homepage:
Spack package:
Versions:
5.6, 5.4, 5.3, 5.2, 5.1.1
Description:
Geant4 data files for radio-active decay hadronic processes

g4realsurface

Homepage:
Spack package:
Versions:
2.2, 2.1.1, 2.1, 1.0
Description:
Geant4 data for measured optical surface reflectance

g4saiddata

Homepage:
Spack package:
Versions:
2.0, 1.1
Description:
Geant4 data from evaluated cross-sections in SAID data-base

g4tendl

Homepage:
Spack package:
Versions:
1.4, 1.3.2, 1.3
Description:
Geant4 data for incident particles [optional]

gamess-ri-mp2-miniapp

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
mpi, lapack
Link Dependencies:
mpi, lapack
Description:
The GAMESS RI-MP2 mini-app computes the correlation energy with the Hartree-Fock energy and wave-function given as inputs. The inputs were generated from GAMESS.

gams

Homepage:
Spack package:
Versions:
27.2
Description:
The General Algebraic Modeling System is a high-level modeling system for mathematical optimization. GAMS is designed for modeling and solving linear, nonlinear, and mixed-integer optimization problems.

ganglia

Homepage:
Spack package:
Versions:
3.7.2
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, apr, libconfuse, python, pcre, libtirpc, expat
Link Dependencies:
apr, libconfuse, python, pcre, libtirpc, expat
Description:
Ganglia is a scalable distributed monitoring system for high-performance computing systems such as clusters and Grids. It is based on a hierarchical design targeted at federations of clusters. Supports clusters up to 2000 nodes in size.

gapbs

Homepage:
Spack package:
Versions:
1.0
Description:
The GAP Benchmark Suite is intended to help graph processing research by standardizing evaluations. Fewer differences between graph processing evaluations will make it easier to compare different research efforts and quantify improvements. The benchmark not only specifies graph kernels, input graphs, and evaluation methodologies, but it also provides an optimized baseline implementation (this repo). These baseline implementations are representative of state-of-the-art performance, and thus new contributions should outperform them to demonstrate an improvement.

gapcloser

Homepage:
Spack package:
Versions:
1.12-r6
Description:
The GapCloser is designed to close the gaps emerging during the scaffolding process

gapfiller

Homepage:
Spack package:
Versions:
1.10
Build Dependencies:
perl
Run Dependencies:
perl
Description:
GapFiller is a stand-alone program for closing gaps within pre-assembled scaffolds. Note: A manual download is required for GapFiller. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

garfieldpp

Homepage:
Spack package:
Versions:
master, 4.0, 3.0
Build Dependencies:
cmake, root, gsl, geant4
Link Dependencies:
root, gsl, geant4
Description:
Garfield++ is a toolkit for the detailed simulation of particle detectors based on ionisation measurement in gases and semiconductors.

gasnet

Homepage:
Spack package:
Versions:
develop, main, master, 2022.3.0, 2021.9.0, 2021.3.0, 2020.10.0, 2020.3.0, 2019.9.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, autoconf, automake
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi
Description:
GASNet is a language-independent, networking middleware layer that provides network-independent, high-performance communication primitives including Remote Memory Access (RMA) and Active Messages (AM). It has been used to implement parallel programming models and libraries such as UPC, UPC++, Co-Array Fortran, Legion, Chapel, and many others. The interface is primarily intended as a compilation target and for use by runtime library writers (as opposed to end users), and the primary goals are high performance, interface portability, and expressiveness. ***NOTICE***: The GASNet library built by this Spack package is ONLY intended for unit-testing purposes, and is generally UNSUITABLE FOR PRODUCTION USE. The RECOMMENDED way to build GASNet is as an embedded library as configured by the higher-level client runtime package (UPC++, Legion, etc), including system-specific configuration.

gatb-core

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1
Build Dependencies:
cmake
Description:
GATB - The Genome Analysis Toolbox with de-Bruijn graph

gate

Homepage:
Spack package:
Versions:
9.1, 9.0
Build Dependencies:
cmake, geant4, root, itk
Link Dependencies:
geant4, root, itk
Description:
Simulations of Preclinical and Clinical Scans in Emission Tomography, Transmission Tomography and Radiation Therapy GATE is an advanced opensource software developed by the international OpenGATE collaboration and dedicated to numerical simulations in medical imaging and radiotherapy. It currently supports simulations of Emission Tomography (Positron Emission Tomography - PET and Single Photon Emission Computed Tomography - SPECT), Computed Tomography (CT), Optical Imaging (Bioluminescence and Fluorescence) and Radiotherapy experiments. Using an easy-to-learn macro mechanism to configurate simple or highly sophisticated experimental settings, GATE now plays a key role in the design of new medical imaging devices, in the optimization of acquisition protocols and in the development and assessment of image reconstruction algorithms and correction techniques. It can also be used for dose calculation in radiotherapy experiments.

gatepet2stir

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
qt, gperftools, ncurses, qwt, root
Link Dependencies:
qt, gperftools, ncurses, qwt, root
Description:
A QT/C++ application to convert GATE geometries to STIR format.

gatetools

Homepage:
Spack package:
Versions:
0.11.2, 0.9.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-click, py-numpy, py-scipy, py-pydicom, py-tqdm, py-colored, py-itk, py-uproot3, py-wget, py-python-box, py-lz4, py-colorama, py-xxhash
Run Dependencies:
python, py-matplotlib, py-click, py-numpy, py-scipy, py-pydicom, py-tqdm, py-colored, py-itk, py-uproot3, py-wget, py-python-box, py-lz4, py-colorama, py-xxhash, gate
Description:
Python tools for GATE, see https://github.com/OpenGATE/Gate

gatk

Homepage:
Spack package:
Versions:
4.2.6.1, 4.2.2.0, 4.1.8.1, 4.1.8.0, 4.1.7.0, 4.1.6.0, 4.1.5.0, 4.1.4.1, 4.1.4.0, 4.1.3.0, 4.1.2.0, 4.1.1.0, 4.1.0.0, 4.0.12.0, 4.0.11.0, 4.0.8.1, 4.0.4.0, 3.8.1, 3.8.0
Run Dependencies:
java, python, r
Description:
Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data

gaudi

Homepage:
Spack package:
Versions:
master, 36.5, 36.4, 36.3, 36.2, 36.1, 36.0, 35.0, 34.0, 33.2, 33.1, 33.0, 32.2, 31.0, 30.5
Build Dependencies:
cmake, aida, boost, clhep, cppgsl, fmt, intel-tbb, uuid, nlohmann-json, python, py-setuptools, py-six, py-xenv, range-v3, root, zlib, py-nose, py-pytest, cppunit, doxygen, gperftools, gdb, gsl, heppdt, jemalloc, libpng, libunwind, py-networkx, relax, xerces-c, intel-parallel-studio
Link Dependencies:
aida, boost, clhep, cppgsl, fmt, intel-tbb, uuid, nlohmann-json, py-setuptools, range-v3, root, zlib, py-nose, cppunit, doxygen, gperftools, gdb, gsl, heppdt, jemalloc, libpng, libunwind, py-networkx, relax, xerces-c, intel-parallel-studio
Run Dependencies:
python, py-six, py-xenv, py-nose, py-pytest
Description:
An experiment-independent HEP event data processing framework

gaussian

Homepage:
Spack package:
Versions:
16-B.01, 09-D.01
Build Dependencies:
tcsh
Link Dependencies:
tcsh
Description:
Gaussian is a computer program for computational chemistry

gaussian-src

Homepage:
Spack package:
Versions:
16-C.01
Build Dependencies:
tcsh
Description:
Gaussian is a computer program for computational chemistry. This Spack package builds Gaussian from source. Needs post-install steps to make it run! See package installation log for details.

gaussian-view

Homepage:
Spack package:
Versions:
6.1.6, 6.0.16
Build Dependencies:
patchelf
Link Dependencies:
libx11, libxext, gl, glu, libxrender, libsm, libice
Run Dependencies:
gaussian, gaussian-src, libx11, libxext, gl, glu, libxrender, libsm, libice
Description:
GaussView 6 is the latest iteration of a graphical interface used with Gaussian. It aids in the creation of Gaussian input files, enables the user to run Gaussian calculations from a graphical interface without the need for using a command line instruction, and helps in the interpretation of Gaussian output. Needs post-install steps to make it run! See package installation logs for details.

gawk

Homepage:
Spack package:
Versions:
5.1.1, 5.1.0, 5.0.1, 4.1.4
Build Dependencies:
gnuconfig, gettext, libsigsegv, readline, mpfr, gmp
Link Dependencies:
gettext, libsigsegv, readline, mpfr, gmp
Description:
If you are like many computer users, you would frequently like to make changes in various text files wherever certain patterns appear, or extract data from parts of certain lines while discarding the rest. To write a program to do this in a language such as C or Pascal is a time- consuming inconvenience that may take many lines of code. The job is easy with awk, especially the GNU implementation: gawk. The awk utility interprets a special-purpose programming language that makes it possible to handle simple data-reformatting jobs with just a few lines of code.

gbl

Homepage:
Spack package:
Versions:
V02-04-01, V02-01-03
Build Dependencies:
cmake, eigen, root
Link Dependencies:
eigen, root
Description:
General Broken Lines: Advanced track fitting library

gblocks

Homepage:
Spack package:
Versions:
0.91b
Description:
Gblocks is a computer program written in ANSI C language that eliminates poorly aligned positions and divergent regions of an alignment of DNA or protein sequences

gcc

Homepage:
Spack package:
Versions:
master, 12.1.0, 11.3.0, 11.2.0, 11.1.0, 10.3.0, 10.2.0, 10.1.0, 9.4.0, 9.3.0, 9.2.0, 9.1.0, 8.5.0, 8.4.0, 8.3.0, 8.2.0, 8.1.0, 7.5.0, 7.4.0, 7.3.0, 7.2.0, 7.1.0, 6.5.0, 6.4.0, 6.3.0, 6.2.0, 6.1.0, 5.5.0, 5.4.0, 5.3.0, 5.2.0, 5.1.0, 4.9.4, 4.9.3, 4.9.2, 4.9.1, 4.8.5, 4.8.4, 4.7.4, 4.6.4, 4.5.4
Build Dependencies:
gnuconfig, flex, gmp, gawk, texinfo, libtool, m4, automake, autoconf, mpfr, mpc, isl, zlib, zstd, diffutils, iconv, gnat, binutils, zip, cuda
Link Dependencies:
gmp, mpfr, mpc, isl, zlib, zstd, iconv, gnat, binutils, cuda
Run Dependencies:
binutils
Test Dependencies:
dejagnu, expect, tcl, autogen, guile
Description:
The GNU Compiler Collection includes front ends for C, C++, Objective-C, Fortran, Ada, and Go, as well as libraries for these languages.

gccmakedep

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, pkgconfig
Description:
X.org gccmakedep utilities.

gccxml

Homepage:
Spack package:
Versions:
develop, latest
Build Dependencies:
cmake
Description:
gccxml dumps an XML description of C++ source code using an extension of the GCC C++ compiler.

gchp

Homepage:
Spack package:
Versions:
13.4.0, 13.3.4, 13.2.1, 13.1.2, 13.1.1, 13.1.0, 13.0.2, 13.0.1, 13.0.0, dev
Build Dependencies:
cmake, esmf, mpi, netcdf-fortran, libfabric, m4
Link Dependencies:
cmake, esmf, mpi, netcdf-fortran, libfabric, m4
Description:
GEOS-Chem High Performance model of atmospheric chemistry

gconf

Homepage:
Spack package:
Versions:
3.2.6
Build Dependencies:
gnuconfig, pkgconfig, gettext, intltool, glib, libxml2, dbus, dbus-glib, orbit2, perl-xml-parser
Link Dependencies:
glib, libxml2, dbus, dbus-glib, orbit2
Run Dependencies:
perl-xml-parser
Description:
GConf is a system for storing application preferences. Note that this software is now deprecated in favor of moving to GSettings and dconf with the GNOME 3 transition.

gcta

Homepage:
Spack package:
Versions:
1.94.0beta, 1.91.2
Build Dependencies:
cmake, intel-mkl, openblas, eigen, boost, zlib, sqlite, zstd, spectra, gsl
Link Dependencies:
intel-mkl, openblas, eigen, boost, zlib, sqlite, zstd, spectra, gsl
Description:
GCTA (Genome-wide Complex Trait Analysis) was originally designed to estimate the proportion of phenotypic variance explained by all genome- wide SNPs for complex traits (the GREML method), and has subsequently extended for many other analyses to better understand the genetic architecture of complex traits. GCTA currently supports the following analyses.

gdal

Homepage:
Spack package:
Versions:
3.4.3, 3.4.2, 3.4.1, 3.4.0, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.4.4, 2.4.3, 2.4.2, 2.4.1, 2.4.0, 2.3.3, 2.3.2, 2.3.1, 2.3.0, 2.1.2, 2.0.2, 1.11.5
Build Dependencies:
gnuconfig, python, gmake, pkgconfig, libtiff, libgeotiff, json-c, libtool, zlib, iconv, xz, postgresql, cfitsio, libpng, jpeg, giflib, fyba, hdf, hdf5, kealib, netcdf-c, jasper, openjpeg, xerces-c, expat, libkml, unixodbc, curl, libxml2, sqlite, pcre2, pcre, geos, qhull, opencl, poppler, proj, perl, py-setuptools, py-numpy, java, ant, swig, armadillo, cryptopp, openssl
Link Dependencies:
python, libtiff, libgeotiff, json-c, zlib, iconv, xz, postgresql, cfitsio, libpng, jpeg, giflib, fyba, hdf, hdf5, kealib, netcdf-c, jasper, openjpeg, xerces-c, expat, libkml, unixodbc, curl, libxml2, sqlite, pcre2, pcre, geos, qhull, opencl, poppler, proj, java, armadillo, cryptopp, openssl
Run Dependencies:
python, perl, py-numpy, java, jackcess
Description:
GDAL (Geospatial Data Abstraction Library) is a translator library for raster and vector geospatial data formats that is released under an X/MIT style Open Source license by the Open Source Geospatial Foundation. As a library, it presents a single raster abstract data model and vector abstract data model to the calling application for all supported formats. It also comes with a variety of useful command line utilities for data translation and processing.

gdb

Homepage:
Spack package:
Versions:
11.2, 11.1, 10.2, 10.1, 9.2, 9.1, 8.3.1, 8.3, 8.2.1, 8.2, 8.1, 8.0.1, 8.0, 7.12.1, 7.11.1, 7.10.1
Build Dependencies:
gnuconfig, texinfo, python, xz, source-highlight, ncurses, gmp
Link Dependencies:
python, xz, source-highlight, ncurses, gmp
Run Dependencies:
python
Description:
GDB, the GNU Project debugger, allows you to see what is going on 'inside' another program while it executes -- or what another program was doing at the moment it crashed.

gdbm

Homepage:
Spack package:
Versions:
1.23, 1.22, 1.21, 1.20, 1.19, 1.18.1, 1.14.1, 1.13, 1.12, 1.11, 1.10, 1.9.1, 1.9
Build Dependencies:
gnuconfig, readline
Link Dependencies:
readline
Description:
GNU dbm (or GDBM, for short) is a library of database functions that use extensible hashing and work similar to the standard UNIX dbm. These routines are provided to a programmer needing to create and manipulate a hashed database.

gdk-pixbuf

Homepage:
Spack package:
Versions:
2.42.6, 2.42.2, 2.40.0, 2.38.2, 2.38.0, 2.31.2
Build Dependencies:
meson, ninja, shared-mime-info, pkgconfig, libxslt, docbook-xsl, gettext, glib, jpeg, libpng, zlib, libtiff, gobject-introspection, libx11
Link Dependencies:
shared-mime-info, gettext, glib, jpeg, libpng, zlib, libtiff, gobject-introspection, libx11
Description:
The Gdk Pixbuf is a toolkit for image loading and pixel buffer manipulation. It is used by GTK+ 2 and GTK+ 3 to load and manipulate images. In the past it was distributed as part of GTK+ 2 but it was split off into a separate package in preparation for the change to GTK+ 3.

gdl

Homepage:
Spack package:
Versions:
0.9.9, 0.9.8
Build Dependencies:
cmake, python, graphicsmagick, hdf, hdf5, libx11, plplot, proj, py-numpy, wxwidgets, eigen, fftw, gsl, jpeg, libice, libsm, libxinerama, libxxf86vm, netcdf-c, pslib, readline
Link Dependencies:
graphicsmagick, hdf, hdf5, libx11, plplot, proj, wxwidgets, eigen, fftw, gsl, jpeg, libice, libsm, libxinerama, libxxf86vm, netcdf-c, pslib, readline, libtirpc, libgeotiff
Run Dependencies:
python, py-numpy
Description:
A free and open-source IDL/PV-WAVE compiler. GNU Data Language (GDL) is a free/libre/open source incremental compiler compatible with IDL and to some extent with PV-WAVE.

gdrcopy

Homepage:
Spack package:
Versions:
master, 2.3, 2.2, 2.1, 2.0, 1.3
Description:
A fast GPU memory copy library based on NVIDIA GPUDirect RDMA technology.

geant4

Homepage:
Spack package:
Versions:
11.0.2, 11.0.1, 11.0.0, 10.7.3, 10.7.2, 10.7.1, 10.7.0, 10.6.3, 10.6.2, 10.6.1, 10.6.0, 10.5.1, 10.4.3, 10.4.0, 10.3.3
Build Dependencies:
cmake, expat, zlib, tbb, vtk, python, clhep, xerces-c, vecgeom, boost, gl, glu, glx, libx11, libxmu, motif, qt
Link Dependencies:
expat, zlib, tbb, vtk, python, clhep, xerces-c, vecgeom, boost, gl, glu, glx, libx11, libxmu, motif, qt
Run Dependencies:
geant4-data, python
Description:
Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.

geant4-data

Homepage:
Spack package:
Versions:
11.0.0, 10.7.3, 10.7.2, 10.7.1, 10.7.0, 10.6.3, 10.6.2, 10.6.1, 10.6.0, 10.5.1, 10.4.3, 10.4.0, 10.3.3
Build Dependencies:
g4ndl, g4emlow, g4photonevaporation, g4radioactivedecay, g4particlexs, g4pii, g4realsurface, g4saiddata, g4abla, g4incl, g4ensdfstate, g4neutronxs
Run Dependencies:
g4ndl, g4emlow, g4photonevaporation, g4radioactivedecay, g4particlexs, g4pii, g4realsurface, g4saiddata, g4abla, g4incl, g4ensdfstate, g4neutronxs
Description:
A bundle package to hold Geant4 data packages

geant4-vmc

Homepage:
Spack package:
Versions:
master, 5-3, 5-2, 5-1-p1, 5-1, 5-0-p5, 5-0-p4, 5-0-p3, 5-0-p2, 5-0-p1, 5-0, 4-0-p3, 4-0-p2, 3-6-p6
Build Dependencies:
cmake, geant4, vmc
Link Dependencies:
geant4, vmc
Description:
Geant4 VMC implements the Virtual Monte Carlo (VMC) for Geant4.

gearshifft

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
cmake, boost, cuda, opencl, clfft, fftw, intel-mkl, rocfft
Link Dependencies:
boost, cuda, opencl, clfft, fftw, intel-mkl, rocfft
Description:
Benchmark Suite for Heterogenuous FFT Implementations

gemmlowp

Homepage:
Spack package:
Versions:
a6f29d9ac
Description:
Google low-precision matrix multiplication library

genemark-et

Homepage:
Spack package:
Versions:
4.69, 4.65, 4.46, 4.38
Build Dependencies:
perl, perl-yaml, perl-hash-merge, perl-parallel-forkmanager, perl-logger-simple, perl-mce, perl-thread-queue, perl-threads
Run Dependencies:
perl, perl-yaml, perl-hash-merge, perl-parallel-forkmanager, perl-logger-simple, perl-mce, perl-thread-queue, perl-threads
Description:
Gene Prediction in Bacteria, archaea, Metagenomes and Metatranscriptomes. When downloaded this file is named the same for all versions. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

genesis

Homepage:
Spack package:
Versions:
master, 1.6.0, 1.5.1
Build Dependencies:
cuda, gnuconfig, autoconf, automake, libtool, m4, mpi, lapack, python
Link Dependencies:
cuda, lapack
Run Dependencies:
mpi, python
Description:
GENESIS is a Molecular dynamics and modeling software for bimolecular systems such as proteins, lipids, glycans, and their complexes.

genfit

Homepage:
Spack package:
Versions:
master, 02-00-00, b496504a
Build Dependencies:
cmake, root, eigen, googletest
Link Dependencies:
root, eigen, googletest
Description:
GenFit is an experiment-independent framework for track reconstruction in particle and nuclear physics

gengeo

Homepage:
Spack package:
Versions:
163
Build Dependencies:
gnuconfig, python, autoconf, automake, libtool, m4, boost, openmpi
Link Dependencies:
boost, openmpi
Run Dependencies:
python
Description:
GenGeo is a library of tools for creating complex particle geometries for use in ESyS-Particle simulations. GenGeo is a standalone application with a Python API that creates geometry files suitable for importing into ESyS-Particle simulations. The functionality of GenGeo far exceeds the in-simulation geometry creation utilities provided by ESyS-Particle itself.

gengetopt

Homepage:
Spack package:
Versions:
2.23, 2.22.6, 2.22.5, 2.22.4, 2.22.3, 2.22.2, 2.22.1, 2.22, 2.21, 2.20
Build Dependencies:
gnuconfig, texinfo
Description:
Tool to write command line option parsing code for C programs

genie

Homepage:
Spack package:
Versions:
master, 3.0.6, 3.0.4, 3.0.2, 3.0.0, 2.12.10, 2.12.8, 2.12.6, 2.12.4, 2.12.2, 2.12.0, 2.11.2, 2.11.0, 2.10.10, 2.10.8, 2.10.6, 2.10.4, 2.10.2, 2.10.0, 2.9.0, 2.8.6
Build Dependencies:
root, pythia6, lhapdf, lhapdf5, log4cpp, libxml2, gsl, cmake
Link Dependencies:
root, pythia6, lhapdf, lhapdf5, log4cpp, libxml2, gsl, cmake
Description:
Genie is a neutrino Monte Carlo Generator.

genomefinisher

Homepage:
Spack package:
Versions:
1.4
Run Dependencies:
java
Description:
GFinisher is an application tools for refinement and finalization of prokaryotic genomes assemblies using the bias of GC Skew to identify assembly errors and organizes the contigs/scaffolds with genomes references.

genometools

Homepage:
Spack package:
Versions:
1.6.2, 1.6.1, 1.5.9
Build Dependencies:
perl, cairo, pango
Link Dependencies:
cairo, pango
Run Dependencies:
perl
Description:
genometools is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt.

genomeworks

Homepage:
Spack package:
Versions:
0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.4, 0.4.3, 0.4.0, 0.3.0, 0.2.0
Build Dependencies:
cuda, cmake, python
Link Dependencies:
cuda
Run Dependencies:
cuda, python
Description:
SDK for GPU accelerated genome assembly and analysis.

genrich

Homepage:
Spack package:
Versions:
0.6
Description:
Genrich is a peak-caller for genomic enrichment assays.

geode

Homepage:
Spack package:
Versions:
1.9.2, 1.9.0, 1.8.0, 1.7.0, 1.6.0
Run Dependencies:
java
Description:
Apache Geode is a data management platform that provides real-time, consistent access to data-intensive applications throughout widely distributed cloud architectures.

geoip

Homepage:
Spack package:
Versions:
1.6.12, 1.6.11, 1.6.10
Build Dependencies:
gnuconfig
Description:
Library for country/city/organization to IP address or hostname mapping.

geoip-api-c

Homepage:
Spack package:
Versions:
1.6.12, 1.6.11, 1.6.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The GeoIP Legacy C library enables the user to find geographical and network information of an IP address.

geopm

Homepage:
Spack package:
Versions:
develop, master, 1.1.0, 1.0.0, 0.6.1, 0.6.0, 0.5.1, 0.5.0, 0.4.0, 0.3.0
Build Dependencies:
gnuconfig, ruby-ronn, doxygen, mpi, m4, autoconf, automake, libtool, numactl, hwloc, json-c, py-cycler, py-pandas, py-tables, py-cffi, py-pyyaml, py-mock, py-future, py-numpy, py-setuptools, py-natsort, py-psutil, py-pylint, py-matplotlib
Link Dependencies:
mpi, numactl, hwloc, json-c
Run Dependencies:
py-cycler, py-pandas, py-tables, py-cffi, py-pyyaml, py-mock, py-future, py-numpy, py-natsort, py-psutil, py-pylint, py-matplotlib
Description:
GEOPM is an extensible power management framework targeting HPC. The GEOPM package provides libgeopm, libgeopmpolicy and applications geopmctl and geopmpolicy, as well as tools for postprocessing. GEOPM is designed to be extended for new control algorithms and new hardware power management features via its plugin infrastructure. Note: GEOPM interfaces with hardware using Model Specific Registers (MSRs). For propper usage make sure MSRs are made available directly or via the msr- safe kernel module by your administrator.

geos

Homepage:
Spack package:
Versions:
3.9.1, 3.8.1, 3.7.2, 3.6.2, 3.6.1, 3.6.0, 3.5.1, 3.5.0, 3.4.3, 3.4.2, 3.4.1, 3.4.0, 3.3.9, 3.3.8, 3.3.7, 3.3.6, 3.3.5, 3.3.4, 3.3.3
Build Dependencies:
cmake, ninja
Description:
GEOS (Geometry Engine - Open Source) is a C++ port of the Java Topology Suite (JTS). As such, it aims to contain the complete functionality of JTS in C++. This includes all the OpenGIS Simple Features for SQL spatial predicate functions and spatial operators, as well as specific JTS enhanced topology functions.

gettext

Homepage:
Spack package:
Versions:
0.21, 0.20.2, 0.20.1, 0.19.8.1, 0.19.7
Build Dependencies:
gnuconfig, iconv, ncurses, libxml2, tar, bzip2, xz, libunistring
Link Dependencies:
iconv, ncurses, libxml2, tar, bzip2, xz, libunistring
Run Dependencies:
xz
Description:
GNU internationalization (i18n) and localization (l10n) library.

gflags

Homepage:
Spack package:
Versions:
2.2.2, 2.1.2
Build Dependencies:
cmake
Description:
The gflags package contains a C++ library that implements commandline flags processing. It includes built-in support for standard types such as string and the ability to define flags in the source file in which they are used. Online documentation available at: https://gflags.github.io/gflags/

gfsio

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
cmake
Description:
The GFSIO library provides an API to convert GFS Gaussian output into grib output. This is part of the NOAA NCEPLIBS project.

gh

Homepage:
Spack package:
Versions:
2.5.1, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.1.0, 2.0.0, 1.14.0, 1.13.1
Build Dependencies:
go
Description:
GitHub's official command line tool.

ghost

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cuda, cmake, hwloc, blas, mpi, scotch, zoltan
Link Dependencies:
cuda, hwloc, blas, mpi, scotch, zoltan
Description:
GHOST: a General, Hybrid and Optimized Sparse Toolkit. This library provides highly optimized building blocks for implementing sparse iterative eigenvalue and linear solvers multi- and manycore clusters and on heterogenous CPU/GPU machines. For an iterative solver library using these kernels, see the phist package.

ghostscript

Homepage:
Spack package:
Versions:
9.54.0, 9.53.3, 9.50, 9.27, 9.26, 9.21, 9.18
Build Dependencies:
gnuconfig, pkgconfig, freetype, jpeg, lcms, libpng, libtiff, zlib, libxext, gtkplus
Link Dependencies:
krb5, freetype, jpeg, lcms, libpng, libtiff, zlib, libxext, gtkplus
Description:
An interpreter for the PostScript language and for PDF.

ghostscript-fonts

Homepage:
Spack package:
Versions:
8.11
Description:
Ghostscript Fonts

giblib

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
gnuconfig, imlib2
Link Dependencies:
imlib2
Description:
Giblib is a simple library which wraps imlib2's context API, avoiding all the context_get/set calls, adds fontstyles to the truetype renderer and supplies a generic doubly-linked list and some string functions.

giflib

Homepage:
Spack package:
Versions:
5.2.1, 5.2.0, 5.1.4
Build Dependencies:
automake, autoconf, m4, libtool
Description:
The GIFLIB project maintains the giflib service library, which has been pulling images out of GIFs since 1989.

ginac

Homepage:
Spack package:
Versions:
1.7.11, 1.7.9, 1.7.8
Build Dependencies:
cmake, cln, python, bison, flex
Link Dependencies:
cln, readline
Run Dependencies:
python
Description:
GiNaC is a C++ library. It is designed to allow the creation of integrated systems that embed symbolic manipulations together with more established areas of computer science (like computation-intense numeric applications, graphical interfaces, etc.) under one roof.

ginkgo

Homepage:
Spack package:
Versions:
develop, master, 1.4.0, 1.3.0, 1.2.0, 1.1.1, 1.1.0, 1.0.0, glu
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, rocthrust, intel-oneapi-mkl, intel-oneapi-dpl
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hipsparse, hipblas, rocrand, hwloc, intel-oneapi-mkl, intel-oneapi-dpl
Test Dependencies:
googletest, numactl
Description:
High-performance linear algebra library for manycore systems, with a focus on sparse solution of linear systems.

giraph

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Giraph is an iterative graph processing system built for high scalability.

git

Homepage:
Spack package:
Versions:
2.35.2, 2.35.1, 2.35.0, 2.34.1, 2.34.0, 2.33.1, 2.33.0, 2.32.0, 2.31.1, 2.31.0, 2.30.1, 2.30.0, 2.29.2, 2.29.0, 2.28.0, 2.27.0, 2.26.0, 2.25.0, 2.23.0, 2.22.0, 2.21.0, 2.20.1, 2.19.2, 2.19.1, 2.18.0, 2.17.1, 2.17.0, 2.15.1, 2.14.1, 2.13.0, 2.12.2, 2.12.1, 2.12.0, 2.11.1, 2.11.0, 2.9.3, 2.9.2, 2.9.1, 2.9.0, 2.8.4, 2.8.3, 2.8.2, 2.8.1, 2.8.0, 2.7.3, 2.7.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, curl, expat, gettext, iconv, libidn2, openssl, pcre, pcre2, perl, zlib, tk
Link Dependencies:
curl, expat, gettext, iconv, libidn2, openssl, pcre, pcre2, perl, zlib, tk
Run Dependencies:
openssh, perl-alien-svn
Description:
Git is a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency.

git-annex

Homepage:
Spack package:
Versions:
10.20220121, 8.20210804, 8.20210622
Build Dependencies:
git
Link Dependencies:
git
Description:
git-annex allows managing files with git, without checking the file contents into git. While that may seem paradoxical, it is useful when dealing with files larger than git can currently easily handle, whether due to limitations in memory, time, or disk space.

git-fat-git

Homepage:
Spack package:
Versions:
2018-08-21
Run Dependencies:
python, git, rsync
Description:
Simple way to handle fat files without committing them to git, supports synchronization using rsync

git-imerge

Homepage:
Spack package:
Versions:
1.1.0, 1.0.0
Build Dependencies:
python, py-argparse, git
Link Dependencies:
python, py-argparse, git
Description:
git-imerge: Incremental merge & rebase for git Perform a merge between two branches incrementally. If conflicts are encountered, figure out exactly which pairs of commits conflict, and present the user with one pairwise conflict at a time for resolution. git-imerge has two primary design goals: * Reduce the pain of resolving merge conflicts to its unavoidable minimum, by finding and presenting the smallest possible conflicts: those between the changes introduced by one commit from each branch. * Allow a merge to be saved, tested, interrupted, published, and collaborated on while it is in progress.

git-lfs

Homepage:
Spack package:
Versions:
3.1.2, 2.13.3, 2.12.1, 2.11.0, 2.10.0, 2.9.0, 2.8.0, 2.7.2, 2.7.1, 2.7.0, 2.6.1
Build Dependencies:
go
Run Dependencies:
git
Description:
Git LFS is a system for managing and versioning large files in association with a Git repository. Instead of storing the large files within the Git repository as blobs, Git LFS stores special "pointer files" in the repository, while storing the actual file contents on a Git LFS server.

gitconddb

Homepage:
Spack package:
Versions:
master, 0.2.0, 0.1.3, 0.1.2, 0.1.1
Build Dependencies:
cmake, pkgconfig, nlohmann-json, googletest, fmt, libgit2
Link Dependencies:
fmt, libgit2
Description:
Conditions Database library using a Git repository as the storage backend

gl2ps

Homepage:
Spack package:
Versions:
1.4.2, 1.4.0, 1.3.9
Build Dependencies:
cmake, freeglut, gl, libice, libsm, libxau, libxdamage, libxdmcp, libxext, libxfixes, libxi, libxmu, libxt, libxxf86vm, libxcb, libdrm, expat, libpng, zlib, texlive
Link Dependencies:
freeglut, gl, libice, libsm, libxau, libxdamage, libxdmcp, libxext, libxfixes, libxi, libxmu, libxt, libxxf86vm, libxcb, libdrm, expat, libpng, zlib
Description:
GL2PS is a C library providing high quality vector output for any OpenGL application.

glew

Homepage:
Spack package:
Versions:
2.2.0, 2.1.0, 2.0.0
Build Dependencies:
cmake, gl, glx
Link Dependencies:
gl, glx
Description:
The OpenGL Extension Wrangler Library.

glfmultiples

Homepage:
Spack package:
Versions:
2010-06-16
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
glfMultiples is a GLF-based variant caller for next-generation sequencing data. It takes a set of GLF format genotype likelihood files as input and generates a VCF-format set of variant calls as output.

glfw

Homepage:
Spack package:
Versions:
3.3.2, 3.3.1, 3.3, 3.2.1, 3.2, 3.1.2, 3.1.1, 3.1, 3.0.4, 3.0.3
Build Dependencies:
cmake, doxygen, libxrandr, libxinerama, libxcursor, libxdamage, libxft, libxi, libxmu, freetype, fontconfig, pkgconfig
Link Dependencies:
libxrandr, libxinerama, libxcursor, libxdamage, libxft, libxi, libxmu, freetype, fontconfig
Description:
GLFW is an Open Source, multi-platform library for OpenGL, OpenGL ES and Vulkan development on the desktop. It provides a simple API for creating windows, contexts and surfaces, receiving input and events.

glib

Homepage:
Spack package:
Versions:
2.72.1, 2.70.5, 2.70.4, 2.70.2, 2.70.0, 2.68.4, 2.68.3, 2.68.2, 2.66.8, 2.66.7, 2.66.6, 2.66.2, 2.64.6, 2.64.5, 2.64.4, 2.64.3, 2.64.2, 2.64.1, 2.62.6, 2.60.7, 2.58.3, 2.56.4, 2.56.3, 2.56.2, 2.56.1, 2.56.0, 2.55.1, 2.53.1, 2.49.7, 2.49.4, 2.48.1, 2.42.1
Build Dependencies:
meson, ninja, pkgconfig, libffi, zlib, gettext, perl, python, pcre, uuid, util-linux, iconv
Link Dependencies:
libffi, zlib, gettext, pcre, uuid, util-linux, iconv
Run Dependencies:
perl, python
Description:
GLib provides the core application building blocks for libraries and applications written in C. The GLib package contains a low-level libraries useful for providing data structure handling for C, portability wrappers and interfaces for such runtime functionality as an event loop, threads, dynamic loading and an object system.

glib-networking

Homepage:
Spack package:
Versions:
2.66.0, 2.65.90, 2.65.1
Build Dependencies:
meson, ninja, gettext, glib, gnutls, gsettings-desktop-schemas, libproxy
Link Dependencies:
glib, gnutls, gsettings-desktop-schemas, libproxy
Description:
Network-related giomodules for glib.

glibmm

Homepage:
Spack package:
Versions:
2.19.3, 2.16.0, 2.4.8
Build Dependencies:
gnuconfig, libsigcpp, glib, pkgconfig
Link Dependencies:
libsigcpp, glib
Description:
Glibmm is a C++ wrapper for the glib library.

glimmer

Homepage:
Spack package:
Versions:
3.02b
Description:
Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses.

glm

Homepage:
Spack package:
Versions:
develop, 0.9.9.8, 0.9.7.1
Build Dependencies:
cmake
Description:
OpenGL Mathematics (GLM) is a header only C++ mathematics library for graphics software based on the OpenGL Shading Language (GLSL) specification

global

Homepage:
Spack package:
Versions:
6.6.7, 6.6.6, 6.6.4, 6.5
Build Dependencies:
exuberant-ctags, ncurses
Link Dependencies:
ncurses
Run Dependencies:
exuberant-ctags
Description:
The Gnu Global tagging system

globalarrays

Homepage:
Spack package:
Versions:
5.8, 5.7.2, 5.7.1, 5.7, 5.6.5, 5.6.4, 5.6.3, 5.6.2, 5.6.1, 5.6
Build Dependencies:
gnuconfig, mpi, blas, lapack, scalapack
Link Dependencies:
mpi, blas, lapack, scalapack
Description:
Global Arrays (GA) is a Partitioned Global Address Space (PGAS) programming model. It provides primitives for one-sided communication (Get, Put, Accumulate) and Atomic Operations (read increment). It supports blocking and non-blocking primtives, and supports location consistency.

glog

Homepage:
Spack package:
Versions:
0.4.0, 0.3.5, 0.3.4, 0.3.3
Build Dependencies:
gflags, cmake
Link Dependencies:
gflags
Description:
C++ implementation of the Google logging module.

gloo

Homepage:
Spack package:
Versions:
master, 2021-05-04, 2020-09-18, 2020-03-17, 2019-11-05, 2019-09-29, 2019-06-19, 2019-02-01, 2018-11-20, 2018-05-29, 2018-04-06
Build Dependencies:
cuda, cmake, ninja
Link Dependencies:
cuda
Description:
Gloo is a collective communications library.

glpk

Homepage:
Spack package:
Versions:
4.65, 4.61, 4.57
Build Dependencies:
gnuconfig, gmp
Link Dependencies:
gmp
Description:
The GLPK (GNU Linear Programming Kit) package is intended for solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems. It is a set of routines written in ANSI C and organized in the form of a callable library.

glproto

Homepage:
Spack package:
Versions:
1.4.17
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
OpenGL Extension to the X Window System. This extension defines a protocol for the client to send 3D rendering commands to the X server.

gluegen

Homepage:
Spack package:
Versions:
java-11-fixes
Build Dependencies:
ant, java
Run Dependencies:
java
Description:
GlueGen is a tool which automatically generates the Java and JNI code necessary to call C libraries.

glusterfs

Homepage:
Spack package:
Versions:
7.3, 7.2, 7.1, 7.0, 6.8, 6.7
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, flex, bison, rpcsvc-proto, acl, uuid, libtirpc, userspace-rcu, pkgconfig
Link Dependencies:
rpcsvc-proto, acl, uuid, libtirpc, userspace-rcu
Description:
Gluster is a software defined distributed storage that can scale to several petabytes. It provides interfaces for object, block and file storage.

glvis

Homepage:
Spack package:
Versions:
develop, 4.0, 3.4, 3.3, 3.2, 3.1
Build Dependencies:
mfem, gl, glu, libx11, sdl2, glm, glew, libpng, libtiff, freetype, fontconfig, uuid
Link Dependencies:
mfem, gl, glu, libx11, sdl2, glm, glew, libpng, libtiff, freetype, fontconfig, uuid
Description:
GLVis: an OpenGL tool for visualization of FEM meshes and functions

gmake

Homepage:
Spack package:
Versions:
4.3, 4.2.1, 4.0
Build Dependencies:
gnuconfig, gettext, guile, texinfo
Link Dependencies:
gettext, guile
Description:
GNU Make is a tool which controls the generation of executables and other non-source files of a program from the program's source files.

gmap-gsnap

Homepage:
Spack package:
Versions:
2021-03-08, 2020-06-01, 2019-05-12, 2019-02-15, 2018-07-04, 2018-03-25, 2018-02-12, 2017-06-16, 2014-12-28
Build Dependencies:
gnuconfig, zlib, bzip2
Link Dependencies:
zlib, bzip2
Description:
GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, and GSNAP: Genomic Short-read Nucleotide Alignment Program

gmime

Homepage:
Spack package:
Versions:
2.6.23
Build Dependencies:
gnuconfig, glib, libgpg-error
Link Dependencies:
glib, libgpg-error
Description:
GMime is a C/C++ library which may be used for the creation and parsing of messages using the Multipurpose Internet Mail Extension (MIME).

gmodel

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
cmake
Description:
Gmsh model generation library Gmodel is a C++11 library that implements a minimal CAD kernel based on the .geo format used by the Gmsh mesh generation code, and is designed to make it easier for users to quickly construct CAD models for Gmsh.

gmp

Homepage:
Spack package:
Versions:
6.2.1, 6.2.0, 6.1.2, 6.1.1, 6.1.0, 6.0.0a, 5.1.3, 4.3.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.

gmsh

Homepage:
Spack package:
Versions:
master, 4.8.4, 4.7.1, 4.7.0, 4.6.0, 4.5.6, 4.5.5, 4.5.4, 4.4.1, 4.2.2, 4.0.0, 3.0.6, 3.0.1, 2.16.0, 2.15.0
Build Dependencies:
cmake, blas, lapack, eigen, alglib, voropp, gmp, mpi, fltk, gl, glu, cairo, hdf5, med, mmg, opencascade, oce, freetype, petsc, slepc, zlib, metis, cgns
Link Dependencies:
blas, lapack, eigen, alglib, voropp, gmp, mpi, fltk, gl, glu, cairo, hdf5, med, mmg, opencascade, oce, freetype, petsc, slepc, zlib, metis, cgns
Description:
Gmsh is a free 3D finite element grid generator with a built-in CAD engine and post-processor. Its design goal is to provide a fast, light and user-friendly meshing tool with parametric input and advanced visualization capabilities. Gmsh is built around four modules: geometry, mesh, solver and post-processing. The specification of any input to these modules is done either interactively using the graphical user interface or in ASCII text files using Gmsh's own scripting language.

gmt

Homepage:
Spack package:
Versions:
master, 6.2.0, 6.1.1, 6.1.0, 6.0.0, 5.4.4, 4.5.9
Build Dependencies:
cmake, netcdf-c, curl, ghostscript, gdal, pcre, fftw, glib, lapack, blas, graphicsmagick, ffmpeg, py-sphinx
Link Dependencies:
netcdf-c, curl, ghostscript, gdal, pcre, fftw, glib, lapack, blas, graphicsmagick, ffmpeg
Test Dependencies:
graphicsmagick
Description:
GMT (Generic Mapping Tools) is an open source collection of about 80 command-line tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing PostScript illustrations ranging from simple x-y plots via contour maps to artificially illuminated surfaces and 3D perspective views.

gmtsar

Homepage:
Spack package:
Versions:
5.6
Build Dependencies:
cmake, gmt
Link Dependencies:
gmt
Description:
GMTSAR is an open source (GNU General Public License) InSAR processing system designed for users familiar with Generic Mapping Tools (GMT).

gnat

Homepage:
Spack package:
Versions:
2016
Description:
The GNAT Ada compiler. Ada is a modern programming language designed for large, long-lived applications - and embedded systems in particular - where reliability and efficiency are essential.

gnds

Homepage:
Spack package:
Versions:
0.0.1
Build Dependencies:
cmake, pugixml
Link Dependencies:
pugixml
Description:
The GNDS package is an implementation of the OECD specifications for the Generalized Nuclear Database Structure used in the AMPX cross section processing code.

gnome-common

Homepage:
Spack package:
Versions:
3.18.0, 3.14.0, 3.12.0, 3.10.0, 3.7.4, 3.6.0, 3.5.91, 3.5.5, 3.4.0.1
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
Module containing various files needed to bootstrap GNOME modules built from git.

gnuconfig

Homepage:
Spack package:
Versions:
master, 2021-08-14
Description:
The GNU config.guess and config.sub scripts versioned by timestamp. This package can be used as a build dependency for autotools packages that ship a tarball with outdated config.guess and config.sub files.

gnupg

Homepage:
Spack package:
Versions:
2.3.4, 2.3.3, 2.3.2, 2.3.1, 2.2.27, 2.2.25, 2.2.24, 2.2.23, 2.2.22, 2.2.21, 2.2.20, 2.2.19, 2.2.17, 2.2.15, 2.2.3, 2.1.21, 1.4.23
Build Dependencies:
gnuconfig, npth, libgpg-error, libgcrypt, libksba, libassuan, iconv, zlib, gawk
Link Dependencies:
npth, libgpg-error, libgcrypt, libksba, libassuan, iconv, zlib
Run Dependencies:
pinentry
Description:
GNU Pretty Good Privacy (PGP) package.

gnuplot

Homepage:
Spack package:
Versions:
5.4.3, 5.4.2, 5.2.8, 5.2.7, 5.2.5, 5.2.2, 5.2.0, 5.0.7, 5.0.6, 5.0.5, 5.0.1
Build Dependencies:
gnuconfig, readline, pkgconfig, libxpm, iconv, libcerf, libgd, cairo, wxwidgets, pango, libsm, libx11, qt
Link Dependencies:
readline, libxpm, iconv, libcerf, libgd, cairo, wxwidgets, pango, libsm, libx11, qt
Description:
Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986

gnuradio

Homepage:
Spack package:
Versions:
3.8.2.0
Build Dependencies:
cmake, volk, python, py-six, swig, log4cpp, boost, py-numpy, py-click, py-pyyaml, py-click-plugins, gsl, gmp, fftw, cppzmq, cairo, hicolor-icon-theme, adwaita-icon-theme, gsettings-desktop-schemas, py-pygobject, py-pyqt5, qwt
Link Dependencies:
volk, log4cpp, boost, gsl, gmp, fftw, cppzmq, cairo, qwt
Run Dependencies:
python, py-six, py-numpy, py-click, py-pyyaml, py-click-plugins, hicolor-icon-theme, adwaita-icon-theme, gsettings-desktop-schemas, py-pygobject, py-pyqt5
Description:
GNU Radio is a free & open-source software development toolkit that provides signal processing blocks to implement software radios. It can be used with readily-available, low-cost external RF hardware to create software-defined radios, or without hardware in a simulation-like environment. It is widely used in hobbyist, academic, and commercial environments to support both wireless communications research and real- world radio systems.

gnutls

Homepage:
Spack package:
Versions:
3.6.15, 3.6.14, 3.6.8, 3.6.7.1, 3.5.19, 3.5.13, 3.5.10, 3.5.9, 3.3.9
Build Dependencies:
gnuconfig, nettle, guile, libidn2, zlib, gettext, pkgconfig
Link Dependencies:
nettle, guile, libidn2, zlib, gettext
Description:
GnuTLS is a secure communications library implementing the SSL, TLS and DTLS protocols and technologies around them. It provides a simple C language application programming interface (API) to access the secure communications protocols as well as APIs to parse and write X.509, PKCS #12, OpenPGP and other required structures. It is aimed to be portable and efficient with focus on security and interoperability.

go

Homepage:
Spack package:
Versions:
1.18, 1.17.8, 1.17.7, 1.17.3, 1.17.2, 1.17.1, 1.17, 1.16.10, 1.16.9, 1.16.6, 1.16.5, 1.16.4, 1.16.3, 1.16.2, 1.16, 1.15.13, 1.15.12, 1.15.11, 1.15.8, 1.15.7, 1.15.6, 1.15.5, 1.15.2, 1.15.1, 1.15, 1.14.14, 1.14.13, 1.14.12, 1.14.9, 1.14.8, 1.14.6, 1.14.5, 1.14.4, 1.14.3, 1.14.2, 1.14.1, 1.14, 1.13.14, 1.13.13, 1.13.12, 1.13.11, 1.13.10, 1.13.9, 1.13.8, 1.13.7, 1.13.6, 1.13.5, 1.13.4, 1.13.3, 1.13.2, 1.13.1, 1.13, 1.12.17, 1.12.15, 1.12.14, 1.12.13, 1.12.12, 1.12.11, 1.12.10, 1.12.9, 1.12.8, 1.12.6, 1.12.5, 1.11.13, 1.11.11, 1.11.10, 1.11.5, 1.11.4, 1.11.2, 1.11.1, 1.11, 1.10.3, 1.10.2, 1.10.1, 1.9.5, 1.9.2, 1.9.1, 1.9, 1.8.3, 1.8.1, 1.8, 1.7.5, 1.7.4, 1.6.4
Build Dependencies:
git, go-bootstrap
Link Dependencies:
git
Run Dependencies:
git
Description:
The golang compiler and build environment

go-bootstrap

Homepage:
Spack package:
Versions:
1.4-bootstrap-20171003, 1.4-bootstrap-20170531, 1.4-bootstrap-20161024
Build Dependencies:
git
Link Dependencies:
git
Run Dependencies:
git
Description:
Old C-bootstrapped go to bootstrap real go

go-md2man

Homepage:
Spack package:
Versions:
1.0.10
Build Dependencies:
go
Link Dependencies:
go
Description:
go-md2man converts markdown into roff (man pages)

gobject-introspection

Homepage:
Spack package:
Versions:
1.72.0, 1.56.1, 1.49.2, 1.48.0
Build Dependencies:
meson, ninja, pkgconfig, bison, flex, sed, cairo, glib, libffi, python
Link Dependencies:
cairo, glib, libffi, python
Description:
The GObject Introspection is used to describe the program APIs and collect them in a uniform, machine readable format.Cairo is a 2D graphics library with support for multiple output

goblin-hmc-sim

Homepage:
Spack package:
Versions:
8.0.0
Description:
The Goblin HMC-Sim is a Hybrid Memory Cube Functional Simulation Environment

goma

Homepage:
Spack package:
Versions:
develop, main, 7.0.4, 7.0.0
Build Dependencies:
cmake, mpi, seacas, trilinos, arpack-ng, metis, omega-h, petsc, sparse, suite-sparse
Link Dependencies:
mpi, seacas, trilinos, arpack-ng, metis, omega-h, petsc, sparse, suite-sparse
Description:
A Full-Newton Finite Element Program for Free and Moving Boundary Problems with Coupled Fluid/Solid Momentum, Energy, Mass, and Chemical Species Transport

google-crc32c

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
cmake
Description:
CRC32C implementation with support for CPU-specific acceleration instructions.

googletest

Homepage:
Spack package:
Versions:
main, 1.11.0, 1.10.0, 1.8.1, 1.8.0, 1.7.0, 1.6.0
Build Dependencies:
cmake
Description:
Google test framework for C++. Also called gtest.

gosam-contrib

Homepage:
Spack package:
Versions:
2.0, 1.0
Build Dependencies:
gnuconfig
Description:
Additional libraries for GoSam MC generator

goshimmer

Homepage:
Spack package:
Versions:
0.8.0
Build Dependencies:
go, snappy, rocksdb, zstd, zlib, lz4
Link Dependencies:
snappy, rocksdb, zstd, zlib, lz4
Description:
GoShimmer is a prototype node for exploring the implementation of IOTA 2.0

gotcha

Homepage:
Spack package:
Versions:
develop, master, 1.0.3, 1.0.2, 0.0.2
Build Dependencies:
cmake
Description:
C software library for shared library function wrapping, enables tools to intercept calls into shared libraries

gource

Homepage:
Spack package:
Versions:
0.44
Build Dependencies:
gnuconfig, automake, autoconf, libtool, glm, pkgconfig, freetype, pcre, boost, glew, jpeg, libpng, sdl2, sdl2-image
Link Dependencies:
freetype, pcre, boost, glew, jpeg, libpng, sdl2, sdl2-image
Description:
Software version control visualization.

gpdb

Homepage:
Spack package:
Versions:
6.2.1, 6.1.0, 6.0.1, 6.0.0, 5.24.0, 5.23.0
Build Dependencies:
gnuconfig, zstd, py-setuptools, apr, libevent, curl, xerces-c, bison, libxml2, flex, readline, py-subprocess32, python, py-lockfile, py-psutil, py-utils
Link Dependencies:
zstd, py-setuptools, apr, libevent, curl, xerces-c, libxml2, flex, readline
Run Dependencies:
py-subprocess32, python, py-lockfile, py-psutil, py-utils
Description:
Greenplum Database (GPDB) is an advanced, fully featured, open source data warehouse, based on PostgreSQL. It provides powerful and rapid analytics on petabyte scale data volumes. Uniquely geared toward big data analytics, Greenplum Database is powered by the world's most advanced cost-based query optimizer delivering high analytical query performance on large data volumes.

gperf

Homepage:
Spack package:
Versions:
3.1, 3.0.4
Build Dependencies:
gnuconfig
Description:
GNU gperf is a perfect hash function generator. For a given list of strings, it produces a hash function and hash table, in form of C or C++ code, for looking up a value depending on the input string. The hash function is perfect, which means that the hash table has no collisions, and the hash table lookup needs a single string comparison only.

gperftools

Homepage:
Spack package:
Versions:
2.9.1, 2.8.1, 2.7, 2.4, 2.3
Build Dependencies:
gnuconfig, unwind
Link Dependencies:
unwind
Description:
Google's fast malloc/free implementation, especially for multi-threaded applications. Contains tcmalloc, heap-checker, heap-profiler, and cpu- profiler.

gpgme

Homepage:
Spack package:
Versions:
1.16.0, 1.12.0
Build Dependencies:
gnuconfig, gnupg, libgpg-error, libassuan
Description:
GPGME is the standard library to access GnuPG functions from programming languages.

gpi-2

Homepage:
Spack package:
Versions:
develop, master, 1.5.1, 1.5.0, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.0, 1.1.0, 1.0.2, 1.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, sed, gawk, mpi, rdma-core, slurm
Link Dependencies:
mpi, rdma-core, slurm
Run Dependencies:
sed, gawk, openssh
Description:
GPI-2 implements GASPI specification, an API specification for asynchronous communication. It provides a flexible, scalable and fault tolerant interface for parallel applications.

gpi-space

Homepage:
Spack package:
Versions:
22.03, 21.12.1, 21.12, 21.09, latest
Build Dependencies:
cmake, chrpath, pkgconfig, boost, hwloc, libssh2, openssl, gpi-2, qt
Link Dependencies:
boost, hwloc, libssh2, openssl, gpi-2, qt
Run Dependencies:
chrpath
Description:
GPI-Space is a task-based workflow management system for parallel applications. It allows the developers to build domain-specific workflows using their own parallelization patterns, data management policies and I/O routines, while relying on the runtime system for the workflow management. The GPI-Space ecosystem "auto-manages" the application with dynamic scheduling, built-in distributed memory transfers and distributed tasks execution.

gplates

Homepage:
Spack package:
Versions:
2.3.0, 2.1.0, 2.0.0
Build Dependencies:
cmake, ninja, gl, glu, glew, python, boost, qt, gdal, cgal, proj, qwt, zlib
Link Dependencies:
gl, glu, glew, python, boost, qt, gdal, cgal, proj, qwt, zlib
Description:
GPlates is desktop software for the interactive visualisation of plate tectonics. GPlates offers a novel combination of interactive plate tectonic reconstructions, geographic information system (GIS) functionality and raster data visualisation. GPlates enables both the visualisation and the manipulation of plate tectonic reconstructions and associated data through geological time.

gprolog

Homepage:
Spack package:
Versions:
1.4.5
Description:
A free Prolog compiler with constraint solving over finite domains.

gptl

Homepage:
Spack package:
Versions:
8.0.3, 8.0.2
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
GPTL is a library to instrument C, C++, and Fortran codes for performance analysis and profiling.

gptune

Homepage:
Spack package:
Versions:
master, 3.0.0, 2.1.0
Build Dependencies:
cmake, mpi, py-setuptools, py-ipyparallel, py-numpy, py-pandas, py-joblib, py-scikit-learn, py-matplotlib, py-pyyaml, py-scikit-optimize, py-gpy, py-lhsmdu, py-hpbandster, py-opentuner, py-ytopt-autotune, py-filelock, py-requests, py-cython, py-pyaml, py-statsmodels, py-mpi4py, pygmo, openturns, py-pymoo, superlu-dist, hypre, openmpi
Link Dependencies:
mpi, blas, lapack, scalapack
Run Dependencies:
mpi, jq, py-ipyparallel, py-numpy, py-pandas, py-joblib, py-scikit-learn, py-matplotlib, py-pyyaml, py-scikit-optimize, py-gpy, py-lhsmdu, py-hpbandster, py-opentuner, py-ytopt-autotune, py-filelock, py-requests, py-cython, py-pyaml, py-statsmodels, py-mpi4py, pygmo, openturns, py-pymoo, superlu-dist, hypre, openmpi
Description:
GPTune is an autotuning framework that relies on multitask and transfer learnings to help solve the underlying black-box optimization problem using Bayesian optimization methodologies.

gpu-burn

Homepage:
Spack package:
Versions:
master, 1.1, 1.0
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
Multi-GPU CUDA stress test.

gqrx

Homepage:
Spack package:
Versions:
2.13.1
Build Dependencies:
cmake, gnuradio, pkgconfig, gr-osmosdr, qt, pulseaudio
Link Dependencies:
gnuradio, gr-osmosdr, qt, pulseaudio
Description:
Gqrx is an open source software defined radio (SDR) receiver implemented using GNU Radio and the Qt GUI toolkit. Currently it works on Linux and Mac with hardware supported by gr-osmosdr, including Funcube Dongle, RTL-SDR, Airspy, HackRF, BladeRF, RFSpace, USRP and SoapySDR. Gqrx can operate as an AM/FM/SSB receiver with audio output or as an FFT-only instrument. There are also various hooks for interacting with external application using nertwork sockets.

gr-osmosdr

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
cmake, gnuradio, swig, hackrf-host
Link Dependencies:
gnuradio, hackrf-host
Description:
While primarily being developed for the OsmoSDR hardware, this block as well supports: FunCube Dongle through libgnuradio-fcd, FUNcube Dongle Pro+ through gr-fcdproplus, sysmocom OsmoSDR Devices through libosmosdr, Nuand LLC bladeRF through libbladeRF library, Great Scott Gadgets HackRF through libhackrf, Ettus USRP Devices through Ettus UHD library, Fairwaves UmTRX through Fairwaves' fork of Ettus' UHD library, RFSPACE SDR-IQ, SDR-IP, NetSDR (incl. X2 option), RTL2832U based DVB-T dongles through librtlsdr, RTL-TCP spectrum server (see librtlsdr project), MSi2500 based DVB-T dongles through libmirisdr, SDRplay RSP through SDRplay API library, AirSpy R820t dongles through libairspy, gnuradio .cfile input through libgnuradio-blocks

grabix

Homepage:
Spack package:
Versions:
0.1.7
Description:
Grabix leverages the fantastic BGZF library in samtools to provide random access into text files that have been compressed with bgzip. grabix creates it's own index (.gbi) of the bgzipped file. Once indexed, one can extract arbitrary lines from the file with the grab command. Or choose random lines with the, well, random command.

grace

Homepage:
Spack package:
Versions:
5.1.25
Build Dependencies:
gnuconfig, libx11, libxext, libxmu, libxp, libxt, libice, libsm, motif, jpeg, libpng, fftw, netcdf-c
Link Dependencies:
libx11, libxext, libxmu, libxp, libxt, libice, libsm, motif, jpeg, libpng, fftw, netcdf-c
Description:
Grace is a WYSIWYG 2D plotting tool for the X Window System and M*tif.

grackle

Homepage:
Spack package:
Versions:
3.1, 3.0, 2.2, 2.0.1
Build Dependencies:
libtool, mpi, hdf5
Link Dependencies:
libtool, mpi, hdf5
Description:
Grackle is a chemistry and radiative cooling library for astrophysical simulations with interfaces for C, C++, and Fortran codes. It is a generalized and trimmed down version of the chemistry network of the Enzo simulation code

gradle

Homepage:
Spack package:
Versions:
7.2, 7.1.1, 7.1, 7.0.2, 7.0.1, 7.0, 6.9.1, 6.9, 6.8.3, 6.8.2, 6.8.1, 6.8, 6.7.1, 6.7, 6.6.1, 6.6, 6.5.1, 6.5, 6.4.1, 6.4, 6.3, 6.2.2, 6.2.1, 6.2, 6.1.1, 6.1, 6.0.1, 6.0, 5.6.4, 5.6.3, 5.6.2, 5.6.1, 5.6, 5.5.1, 5.5, 5.4.1, 5.4, 5.3.1, 5.3, 5.2.1, 5.2, 5.1.1, 5.1, 5.0, 4.10.3, 4.10.2, 4.10.1, 4.10, 4.9, 4.8.1, 3.4, 3.3, 3.2.1, 3.2, 3.1, 3.0, 2.14.1, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5, 2.4, 2.3, 2.2.1, 2.2, 2.1, 2.0, 1.12, 1.11, 1.10, 1.9, 1.8, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0, 0.9.2, 0.9.1, 0.9, 0.8, 0.7
Build Dependencies:
java
Link Dependencies:
java
Description:
Gradle is an open source build automation system that builds upon the concepts of Apache Ant and Apache Maven and introduces a Groovy-based domain-specific language (DSL) instead of the XML form used by Apache Maven for declaring the project configuration. Gradle uses a directed acyclic graph ("DAG") to determine the order in which tasks can be run.

grads

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
gnuconfig, libgeotiff, shapelib, udunits, libgd, libxmu, cairo, readline, pkgconfig
Link Dependencies:
libgeotiff, shapelib, udunits, libgd, libxmu, cairo, readline
Description:
The Grid Analysis and Display System (GrADS) is an interactive desktop tool that is used for easy access, manipulation, and visualization of earth science data. GrADS has two data models for handling gridded and station data. GrADS supports many data file formats, including binary (stream or sequential), GRIB (version 1 and 2), NetCDF, HDF (version 4 and 5), and BUFR (for station data).

grafana

Homepage:
Spack package:
Versions:
6.7.3, 6.7.2, 6.7.1, 6.7.0, 6.6.2
Build Dependencies:
go
Description:
The tool for beautiful monitoring and metric analytics & dashboards for Graphite, InfluxDB & Prometheus & More

grandr

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
gnuconfig, gtkplus, gconf, xrandr
Link Dependencies:
gtkplus, gconf, xrandr
Description:
RandR user interface using GTK+ libraries.

graph500

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Graph500 reference implementations.

graphblast

Homepage:
Spack package:
Versions:
master, 2020-05-07
Build Dependencies:
cuda, boost
Link Dependencies:
cuda, boost
Description:
High-Performance Linear Algebra-based Graph Primitives on GPUs

graphicsmagick

Homepage:
Spack package:
Versions:
1.3.34, 1.3.33, 1.3.32, 1.3.31, 1.3.30, 1.3.29
Build Dependencies:
gnuconfig, bzip2, ghostscript, ghostscript-fonts, graphviz, jasper, jpeg, lcms, libice, libpng, libsm, libtiff, libtool, libxml2, xz, zlib
Link Dependencies:
bzip2, ghostscript, ghostscript-fonts, graphviz, jasper, jpeg, lcms, libice, libpng, libsm, libtiff, libtool, libxml2, xz, zlib
Description:
GraphicsMagick is the swiss army knife of image processing. Provides a robust and efficient collection of tools and libraries which support reading, writing, and manipulating an image in over 88 major formats including important formats like DPX, GIF, JPEG, JPEG-2000, PNG, PDF, PNM, and TIFF.

graphite2

Homepage:
Spack package:
Versions:
1.3.13
Build Dependencies:
cmake
Test Dependencies:
python
Description:
Graphite is a system that can be used to create "smart fonts" capable of displaying writing systems with various complex behaviors. A smart font contains not only letter shapes but also additional instructions indicating how to combine and position the letters in complex ways.

graphlib

Homepage:
Spack package:
Versions:
3.0.0, 2.0.0
Build Dependencies:
cmake
Description:
Library to create, manipulate, and export graphs Graphlib.

graphmap

Homepage:
Spack package:
Versions:
0.3.0
Link Dependencies:
zlib
Description:
A highly sensitive and accurate mapper for long, error-prone reads

graphviz

Homepage:
Spack package:
Versions:
2.49.0, 2.47.2, 2.46.0, 2.44.1, 2.42.4, 2.40.1, 2.38.0
Build Dependencies:
gnuconfig, swig, java, zlib, groff, ghostscript, expat, libgd, fontconfig, freetype, gtkplus, gts, cairo, glib, libpng, pango, poppler, qt, libx11, automake, autoconf, bison, flex, sed, libtool, pkgconfig, python
Link Dependencies:
swig, java, zlib, ghostscript, expat, libgd, fontconfig, freetype, gtkplus, gts, cairo, glib, libpng, pango, poppler, qt, libx11
Description:
Graph Visualization Software

grass

Homepage:
Spack package:
Versions:
master, 7.8.5, 7.8.2, 7.8.1, 7.8.0, 7.6.1, 7.4.4, 7.4.3, 7.4.2, 7.4.1, 7.4.0
Build Dependencies:
gnuconfig, gmake, iconv, zlib, flex, bison, proj, python, py-six, libtiff, libpng, postgresql, mariadb, sqlite, gl, unixodbc, fftw, blas, lapack, cairo, freetype, readline, opencl, bzip2, zstd, gdal, liblas, wxwidgets, py-wxpython, netcdf-c, geos, libx11
Link Dependencies:
iconv, zlib, proj, libtiff, libpng, postgresql, mariadb, sqlite, gl, unixodbc, fftw, blas, lapack, cairo, freetype, readline, opencl, bzip2, zstd, gdal, liblas, wxwidgets, netcdf-c, geos, libx11
Run Dependencies:
python, py-six, py-wxpython
Description:
GRASS GIS (Geographic Resources Analysis Support System), is a free and open source Geographic Information System (GIS) software suite used for geospatial data management and analysis, image processing, graphics and maps production, spatial modeling, and visualization.

graylog2-server

Homepage:
Spack package:
Versions:
3.2.4, 3.2.3, 3.2.2, 3.2.1, 3.2.0
Build Dependencies:
java
Run Dependencies:
java
Description:
Free and open source log management.

grep

Homepage:
Spack package:
Versions:
3.7, 3.3
Build Dependencies:
gnuconfig
Description:
Grep searches one or more input files for lines containing a match to a specified pattern

grib-api

Homepage:
Spack package:
Versions:
1.24.0, 1.21.0, 1.17.0, 1.16.0
Build Dependencies:
cmake, netcdf-c, openjpeg, jasper, libpng, libaec, python, py-numpy
Link Dependencies:
netcdf-c, openjpeg, jasper, libpng, libaec, python
Run Dependencies:
python, py-numpy
Description:
The ECMWF GRIB API is an application program interface accessible from C, FORTRAN and Python programs developed for encoding and decoding WMO FM-92 GRIB edition 1 and edition 2 messages. The API was deprecated https://www.ecmwf.int/en/newsletter/152/news/end-road-grib-api in favor of ecCodes.

grib-util

Homepage:
Spack package:
Versions:
1.2.4, 1.2.3
Build Dependencies:
cmake, jasper, libpng, zlib, w3nco, g2, bacio, ip, sp
Link Dependencies:
jasper, libpng, zlib, w3nco, g2, bacio, ip, sp
Description:
This is a collection of NCEP GRIB related utilities. This is related to NOAA's NCEPLIBS project.

gridlab-d

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, xerces-c, superlu-mt, helics
Link Dependencies:
xerces-c, superlu-mt, helics
Description:
Autotools package for Gridlab-D, a new power distribution system simulation and analysis tool that provides valuable information to users who design and operate distribution systems, and to utilities that wish to take advantage of the latest energy technologies. Gridlab-D is a flexible simulation environment that can be integrated with a variety of third-party data management and analysis tools.

grnboost

Homepage:
Spack package:
Versions:
2017-10-9
Build Dependencies:
sbt, java
Run Dependencies:
java, xgboost, spark
Description:
GRNBoost is a library built on top of Apache Spark that implements a scalable strategy for gene regulatory network (GRN) inference. See https://github.com/aertslab/GRNBoost/blob/master/docs/user_guide.md for the user guide. The location of xgboost4j-<version>.jar and GRNBoost.jar are set to $XGBOOST_JAR and $GRNBOOST_JAR. Path to xgboost4j-<version>.jar is also added to CLASSPATH.

groff

Homepage:
Spack package:
Versions:
1.22.4, 1.22.3
Build Dependencies:
gnuconfig, gawk, gmake, sed, ghostscript, iconv, texinfo, uchardet, pkgconfig, libice, libxaw, libxmu, libx11
Link Dependencies:
ghostscript, iconv, uchardet, libice, libxaw, libxmu, libx11
Description:
Groff (GNU troff) is a typesetting system that reads plain text mixed with formatting commands and produces formatted output. Output may be PostScript or PDF, html, or ASCII/UTF8 for display at the terminal.

gromacs

Homepage:
Spack package:
Versions:
master, 2021.5, 2021.4, 2021.3, 2021.2, 2021.1, 2021, 2020.6, 2020.5, 2020.4, 2020.3, 2020.2, 2020.1, 2020, 2019.6, 2019.5, 2019.4, 2019.3, 2019.2, 2019.1, 2019, 2018.8, 2018.5, 2018.4, 2018.3, 2018.2, 2018.1, 2018, 2016.6, 2016.5, 2016.4, 2016.3, 5.1.5, 5.1.4, 5.1.2, 4.6.7, 4.5.5
Build Dependencies:
cmake, mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Link Dependencies:
mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Description:
GROMACS (GROningen MAchine for Chemical Simulations) is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world. GROMACS is one of the fastest and most popular software packages available and can run on CPUs as well as GPUs. It is free, open source released under the GNU General Public License. Starting from version 4.6, GROMACS is released under the GNU Lesser General Public License.

gromacs-chain-coordinate

Homepage:
Spack package:
Versions:
main, 2021.2-0.1
Build Dependencies:
cmake, mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Link Dependencies:
mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Description:
A modification of GROMACS that implements the "chain coordinate", a reaction coordinate for pore formation in membranes and stalk formation between membranes.

gromacs-swaxs

Homepage:
Spack package:
Versions:
2021.4-0.2, 2021.4-0.1, 2020.6-0.2, 2020.6-0.1, 2019.6-0.3, 2019.6-0.2, 2019.6-0.1, 2018.8-0.4, 2018.8-0.3, 2018.8-0.2, 2018.8-0.1, 2016.6-0.1, 5.1.5-0.3, 5.0.7-0.5, 4.6.7-0.8
Build Dependencies:
cmake, mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Link Dependencies:
mpi, plumed, fftw-api, cuda, sycl, lapack, blas, hwloc
Description:
Modified Gromacs for small-angle scattering calculations (SAXS/WAXS/SANS)

grpc

Homepage:
Spack package:
Versions:
1.39.0, 1.38.1, 1.38.0, 1.37.1, 1.37.0, 1.36.4, 1.36.3, 1.33.1, 1.32.0, 1.31.0, 1.30.0, 1.29.1, 1.29.0, 1.28.2, 1.28.1, 1.28.0, 1.27.0, 1.26.0, 1.25.0, 1.24.3, 1.23.1
Build Dependencies:
cmake, protobuf, openssl, zlib, c-ares, abseil-cpp, re2
Link Dependencies:
protobuf, openssl, zlib, c-ares, abseil-cpp, re2
Description:
A high performance, open-source universal RPC framework.

gsettings-desktop-schemas

Homepage:
Spack package:
Versions:
3.38.0, 3.37.92, 3.37.2
Build Dependencies:
meson, ninja, glib, gobject-introspection, gettext
Link Dependencies:
glib
Description:
gsettings-desktop-schemas contains a collection of GSettings schemas for settings shared by various components of a desktop.

gsl

Homepage:
Spack package:
Versions:
2.7.1, 2.7, 2.6, 2.5, 2.4, 2.3, 2.2.1, 2.1, 2.0, 1.16
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, blas
Link Dependencies:
blas
Description:
The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.

gslib

Homepage:
Spack package:
Versions:
develop, 1.0.7, 1.0.6, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
mpi, blas
Link Dependencies:
mpi, blas
Description:
Highly scalable Gather-scatter code with AMG and XXT solvers

gtk-doc

Homepage:
Spack package:
Versions:
1.33.2, 1.32
Build Dependencies:
gnuconfig, autoconf, automake, itstool, libtool, m4, pkgconfig, python, py-pygments, libxslt, libxml2, docbook-xsl, docbook-xml
Link Dependencies:
libxslt, libxml2, docbook-xsl, docbook-xml
Run Dependencies:
pkgconfig, python, py-pygments
Test Dependencies:
py-anytree, py-lxml, py-parameterized, py-six
Description:
GtkDoc is a tool used to extract API documentation from C-code like Doxygen, but handles documentation of GObject (including signals and properties) that makes it very suitable for GTK+ apps and libraries. It uses docbook for intermediate files and can produce html by default and pdf/man-pages with some extra work.

gtkmm

Homepage:
Spack package:
Versions:
2.19.7, 2.19.6, 2.19.4, 2.19.2, 2.17.11, 2.17.1, 2.16.0, 2.4.11
Build Dependencies:
gnuconfig, glibmm, atk, gtkplus, pangomm, cairomm, pkgconfig
Link Dependencies:
glibmm, atk, gtkplus, pangomm, cairomm
Description:
Gtkmm is the official C++ interface for the popular GUI library GTK+.

gtkorvo-atl

Homepage:
Spack package:
Versions:
develop, 2.2, 2.1
Build Dependencies:
cmake, gtkorvo-cercs-env
Link Dependencies:
gtkorvo-cercs-env
Description:
Libatl provides a library for the creation and manipulation of lists of name/value pairs using an efficient binary representation.

gtkorvo-cercs-env

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
cmake
Description:
A utility library used by some GTkorvo packages.

gtkorvo-dill

Homepage:
Spack package:
Versions:
develop, 2.4, 2.1
Build Dependencies:
cmake
Description:
DILL provides instruction-level code generation, register allocation and simple optimizations for generating executable code directly into memory regions for immediate use.

gtkorvo-enet

Homepage:
Spack package:
Versions:
1.3.14, 1.3.13
Build Dependencies:
gnuconfig
Description:
ENet reliable UDP networking library. This is a downstream branch of lsalzman's ENet. This version has expanded the client ID to handle more clients. The original is at https://github.com/lsalzman/enet.

gtkplus

Homepage:
Spack package:
Versions:
3.24.29, 3.24.26, 3.20.10, 2.24.32, 2.24.31, 2.24.25
Build Dependencies:
meson, ninja, pkgconfig, glib, pango, fribidi, atk, at-spi2-atk, cairo, gdk-pixbuf, gobject-introspection, shared-mime-info, libxkbcommon, librsvg, xrandr, libepoxy, libxi, inputproto, fixesproto, gettext, cups
Link Dependencies:
glib, pango, fribidi, atk, at-spi2-atk, cairo, gdk-pixbuf, gobject-introspection, shared-mime-info, libxkbcommon, librsvg, xrandr, libepoxy, libxi, inputproto, fixesproto, gettext, cups
Description:
The GTK+ package contains libraries used for creating graphical user interfaces for applications.

gtksourceview

Homepage:
Spack package:
Versions:
4.2.0, 3.24.11
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, gobject-introspection, intltool, pkgconfig, gettext, glib, gtkplus, libxml2, pango, gdk-pixbuf, atk, iconv
Link Dependencies:
gettext, glib, gtkplus, libxml2, pango, gdk-pixbuf, atk, iconv
Description:
GtkSourceView is a GNOME library that extends GtkTextView, the standard GTK+ widget for multiline text editing. GtkSourceView adds support for syntax highlighting, undo/redo, file loading and saving, search and replace, a completion system, printing, displaying line numbers, and other features typical of a source code editor.

gts

Homepage:
Spack package:
Versions:
121130
Build Dependencies:
gnuconfig, glib
Link Dependencies:
glib
Description:
GTS stands for the GNU Triangulated Surface Library. It is an Open Source Free Software Library intended to provide a set of useful functions to deal with 3D surfaces meshed with interconnected triangles. The source code is available free of charge under the Free Software LGPL license. The code is written entirely in C with an object-oriented approach based mostly on the design of GTK+. Careful attention is paid to performance related issues as the initial goal of GTS is to provide a simple and efficient library to scientists dealing with 3D computational surface meshes.

guacamole-client

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Guacamole is a clientless remote desktop gateway. It supports standard protocols like VNC, RDP, and SSH.

guacamole-server

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, cairo, libjpeg, libpng, uuid
Link Dependencies:
cairo, libjpeg, libpng, uuid
Description:
The guacamole-server package is a set of software which forms the basis of the Guacamole stack. It consists of guacd, libguac, and several protocol support libraries.

guidance

Homepage:
Spack package:
Versions:
2.02
Build Dependencies:
perl, perl-bioperl, ruby, prank, clustalw, mafft, muscle
Link Dependencies:
ruby, prank, clustalw, mafft, muscle
Run Dependencies:
perl, perl-bioperl
Description:
Guidance: Accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters.

guile

Homepage:
Spack package:
Versions:
2.2.6, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.0.14, 2.0.11
Build Dependencies:
gnuconfig, bdw-gc, gmp, gettext, libtool, libunistring, libffi, readline, pkgconfig
Link Dependencies:
bdw-gc, gmp, gettext, libtool, libunistring, libffi, readline
Description:
Guile is the GNU Ubiquitous Intelligent Language for Extensions, the official extension language for the GNU operating system.

gunrock

Homepage:
Spack package:
Versions:
master, 1.2, 1.1, 1.0, 0.5.1, 0.5, 0.4, 0.3.1, 0.3, 0.2, 0.1
Build Dependencies:
cuda, cmake, googletest, lcov, boost, metis
Link Dependencies:
cuda, googletest, lcov, boost, metis
Description:
High-Performance Graph Primitives on GPUs

gurobi

Homepage:
Spack package:
Versions:
9.5.1, 9.1.2, 7.5.2
Build Dependencies:
python
Link Dependencies:
python
Run Dependencies:
python
Description:
The Gurobi Optimizer was designed from the ground up to be the fastest, most powerful solver available for your LP, QP, QCP, and MIP (MILP, MIQP, and MIQCP) problems.

gxsview

Homepage:
Spack package:
Versions:
2021.07.01
Build Dependencies:
qt, fontconfig, vtk
Link Dependencies:
qt, fontconfig, vtk
Description:
Gxsview is a stand-alone multi-platform integrated tool to visualize input data of Monte Carlo radiation transport calculation code, MCNP5, and PHITS3. It consists of 3D, 2D, cross-section, and input file viewers. Also, this software is capable of exporting in 2D(png, jpg, and xpm) or 3D(stl, vtk, vtp and ply) formats.

gzip

Homepage:
Spack package:
Versions:
1.12, 1.11, 1.10
Build Dependencies:
gnuconfig
Description:
GNU Gzip is a popular data compression program originally written by Jean-loup Gailly for the GNU project.

h2database

Homepage:
Spack package:
Versions:
1.4.200, 1.4.199, 1.4.198, 1.4.197, 1.4.196, 1.4.195, 1.4.194, 1.4.193, 1.4.192, 1.4.191
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
H2 is an embeddable RDBMS written in Java.

h5bench

Homepage:
Spack package:
Versions:
develop, 1.2, 1.1, 1.0, latest
Build Dependencies:
cmake, mpi, hdf5, parallel-netcdf
Link Dependencies:
mpi, hdf5, parallel-netcdf
Description:
A benchmark suite for measuring HDF5 performance.

h5cpp

Homepage:
Spack package:
Versions:
master, 1.10.4-6, 1.10.4-5
Build Dependencies:
cmake, hdf5, mpi
Link Dependencies:
hdf5, mpi
Description:
Easy to use HDF5 C++ templates for Serial and Parallel HDF5

h5hut

Homepage:
Spack package:
Versions:
2.0.0rc3
Build Dependencies:
gnuconfig, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
H5hut (HDF5 Utility Toolkit). High-Performance I/O Library for Particle- based Simulations.

h5part

Homepage:
Spack package:
Versions:
1.6.6
Build Dependencies:
gnuconfig, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
Portable High Performance Parallel Data Interface to HDF5

h5utils

Homepage:
Spack package:
Versions:
1.13.1, 1.12.1
Build Dependencies:
gnuconfig, hdf5, libpng, octave, hdf, libmatheval
Link Dependencies:
hdf5, libpng, octave, hdf, libmatheval
Description:
h5utils is a set of utilities for visualization and conversion of scientific data in the free, portable HDF5 format.

h5z-zfp

Homepage:
Spack package:
Versions:
develop, 1.0.1, 0.8.0, 0.7.0
Build Dependencies:
hdf5, mpi, zfp
Link Dependencies:
hdf5, mpi, zfp
Description:
A highly flexible floating point and integer compression plugin for the HDF5 library using ZFP compression.

hacckernels

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
HACCKernels: A Benchmark for HACC's Particle Force Kernels. The Hardware/Hybrid Accelerated Cosmology Code (HACC), a cosmology N-body- code framework, is designed to run efficiently on diverse computing architectures and to scale to millions of cores and beyond.

hackrf-host

Homepage:
Spack package:
Versions:
2018.01.1
Build Dependencies:
cmake, libusb, fftw
Link Dependencies:
libusb, fftw
Description:
Software for HackRF, a low cost, open source Software Defined Radio platform.

hadoop

Homepage:
Spack package:
Versions:
3.3.2, 3.3.0, 3.2.2, 3.2.1, 3.1.3, 2.10.1, 2.10.0, 2.9.2, 2.8.5, 2.7.7, 2.7.5
Run Dependencies:
java
Description:
The Apache Hadoop software library is a framework that allows for the distributed processing of large data sets across clusters of computers using simple programming models.

hadoop-xrootd

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
java, maven, hadoop, xrootd
Link Dependencies:
hadoop, xrootd
Run Dependencies:
java
Description:
Connector between Hadoop and XRootD protocols (EOS compatible).

hal

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
hdf5, sonlib
Link Dependencies:
hdf5
Run Dependencies:
python, py-sonlib
Description:
HAL is a structure to efficiently store and index multiple genome alignments and ancestral reconstructions. HAL is a graph-based representation which provides several advantages over matrix/block-based formats such as MAF, such as improved scalability and the ability to perform queries with respect to an arbitrary reference or subtree.

halc

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
dos2unix
Run Dependencies:
blasr, lordec, python
Description:
HALC is software that makes error correction for long reads with high throughput.

half

Homepage:
Spack package:
Versions:
2.1.0, 1.12.0
Description:
This is a C++ header-only library to provide an IEEE-754 conformant half-precision floating point type along with corresponding arithmetic operators, type conversions and common mathematical functions. It aims for both efficiency and ease of use, trying to accurately mimic the behaviour of the builtin floating point types at the best performance possible. It automatically uses and provides C++11 features when possible, but stays completely C++98-compatible when neccessary.

hama

Homepage:
Spack package:
Versions:
0.7.1
Description:
Apache Hama is a framework for Big Data analytics which uses the Bulk Synchronous Parallel (BSP) computing model, which was established in 2012 as a Top-Level Project of The Apache Software Foundation.

hapcut2

Homepage:
Spack package:
Versions:
2017-07-10, v1.3.1
Build Dependencies:
htslib, curl, openssl, xz, bzip2, zlib
Link Dependencies:
htslib, curl, openssl, xz, bzip2, zlib
Description:
HapCUT2 is a maximum-likelihood-based tool for assembling haplotypes from DNA sequence reads, designed to 'just work' with excellent speed and accuracy.

hapdip

Homepage:
Spack package:
Versions:
2018.02.20
Run Dependencies:
k8
Description:
The CHM1-NA12878 benchmark for single-sample SNP/INDEL calling from WGS Illumina data.

haploview

Homepage:
Spack package:
Versions:
4.1
Build Dependencies:
java
Run Dependencies:
java
Description:
Haploview is designed to simplify and expedite the process of haplotype analysis.

haproxy

Homepage:
Spack package:
Versions:
2.1.1, 2.1.0
Description:
HAProxy is a single-threaded, event-driven, non-blocking engine combining a very fast I/O layer with a priority-based scheduler.

harfbuzz

Homepage:
Spack package:
Versions:
4.2.1, 4.1.0, 4.0.1, 3.4.0, 3.3.2, 3.2.0, 3.1.2, 2.9.1, 2.6.8, 2.3.1, 2.1.3, 1.9.0, 1.4.6, 0.9.37
Build Dependencies:
meson, ninja, pkgconfig, glib, gobject-introspection, icu4c, freetype, cairo, zlib, graphite2
Link Dependencies:
glib, gobject-introspection, icu4c, freetype, cairo, zlib, graphite2
Description:
The Harfbuzz package contains an OpenType text shaping engine.

harminv

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
gnuconfig, blas, lapack
Link Dependencies:
blas, lapack
Description:
Harminv is a free program (and accompanying library) to solve the problem of harmonic inversion - given a discrete-time, finite-length signal that consists of a sum of finitely-many sinusoids (possibly exponentially decaying) in a given bandwidth, it determines the frequencies, decay constants, amplitudes, and phases of those sinusoids.

hashcat

Homepage:
Spack package:
Versions:
6.1.1, 6.1.0, 6.0.0, 5.1.0, 5.0.0
Description:
hashcat is the world's fastest and most advanced password recovery utility, supporting five unique modes of attack for over 300 highly optimized hashing algorithms. hashcat currently supports CPUs, GPUs, and other hardware accelerators on Linux, Windows, and macOS,and has facilities to help enable distributed password cracking.

haveged

Homepage:
Spack package:
Versions:
1.9.13
Build Dependencies:
gnuconfig
Description:
A Linux entropy source using the HAVEGE algorithm.

hazelcast

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, 3.12.8, 3.12.7, 3.11.7
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Hazelcast is an open-source distributed in-memory data store and computation platform. It provides a wide variety of distributed data structures and concurrency primitives.

hbase

Homepage:
Spack package:
Versions:
2.4.9, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.1.8
Run Dependencies:
java
Description:
Apache HBase is an open-source, distributed, versioned, column-oriented store modeled after Google' Bigtable: A Distributed Storage System for Structured Data by Chang et al. Just as Bigtable leverages the distributed data storage provided by the Google File System, HBase provides Bigtable-like capabilities on top of Apache Hadoop.

hbm-dramsim2

Homepage:
Spack package:
Versions:
1.0.0
Description:
HBM Simulator based on DRAMSim2

hc

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gmt, netcdf-c
Link Dependencies:
gmt, netcdf-c
Description:
HC is a global mantle circulation solver following Hager & O'Connell (1981) which can compute velocities, tractions, and geoid for simple density distributions and plate velocities.

hcoll

Homepage:
Spack package:
Versions:
3.9.1927
Description:
Modern interface for Mellanox Fabric Collective Accelerator (FCA). FCA is a MPI-integrated software package that utilizes CORE-Direct technology for implementing the MPI collective communications.

hdf

Homepage:
Spack package:
Versions:
4.2.15, 4.2.14, 4.2.13, 4.2.12, 4.2.11
Build Dependencies:
gnuconfig, zlib, jpeg, szip, rpc, bison, flex, java
Link Dependencies:
zlib, jpeg, szip, rpc
Run Dependencies:
java
Description:
HDF4 (also known as HDF) is a library and multi-object file format for storing and managing data between machines.

hdf-eos2

Homepage:
Spack package:
Versions:
2.20v1.00, 2.19b
Build Dependencies:
gnuconfig, hdf
Link Dependencies:
hdf
Description:
HDF-EOS (Hierarchical Data Format - Earth Observing System) is a self- describing file format based upon HDF for standard data products that are derived from EOS missions. HDF-EOS2 is based upon HDF4.

hdf-eos5

Homepage:
Spack package:
Versions:
5.1.16, 5.1.15
Build Dependencies:
gnuconfig, hdf5
Link Dependencies:
hdf5
Description:
HDF-EOS (Hierarchical Data Format - Earth Observing System) is a self- describing file format based upon HDF for standard data products that are derived from EOS missions. HDF-EOS5 is based upon HDF5.

hdf5

Homepage:
Spack package:
Versions:
develop-1.13, develop-1.12, develop-1.10, develop-1.8, 1.13.1, 1.13.0, 1.12.2, 1.12.1, 1.12.0, 1.10.8, 1.10.7, 1.10.6, 1.10.5, 1.10.4, 1.10.3, 1.10.2, 1.10.1, 1.10.0-patch1, 1.10.0, 1.8.22, 1.8.21, 1.8.19, 1.8.18, 1.8.17, 1.8.16, 1.8.15, 1.8.14, 1.8.13, 1.8.12, 1.8.10
Build Dependencies:
cmake, mpi, java, szip, zlib
Link Dependencies:
mpi, szip, zlib
Run Dependencies:
java, pkgconfig
Description:
HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data.

hdf5-blosc

Homepage:
Spack package:
Versions:
master
Build Dependencies:
c-blosc, hdf5, libtool
Link Dependencies:
c-blosc, hdf5
Description:
Blosc filter for HDF5

hdf5-vfd-gds

Homepage:
Spack package:
Versions:
master, 1.0.1, 1.0.0
Build Dependencies:
cuda, cmake, hdf5
Link Dependencies:
cuda, cmake, hdf5
Description:
This package enables GPU Direct Storage Virtual File Driver in HDF5.

hdf5-vol-async

Homepage:
Spack package:
Versions:
1.1, 1.0
Build Dependencies:
cmake, mpi, argobots, hdf5
Link Dependencies:
mpi, argobots, hdf5
Description:
This package enables asynchronous IO in HDF5.

hdf5-vol-external-passthrough

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
cmake, hdf5
Link Dependencies:
hdf5
Description:
Package for HDF5 external pass-through VOL.

hdf5-vol-log

Homepage:
Spack package:
Versions:
master-1.1, 1.1.0
Build Dependencies:
gnuconfig, hdf5, autoconf, automake, libtool, m4
Link Dependencies:
hdf5
Description:
Log-based VOL - an HDF5 VOL Plugin that stores HDF5 datasets in a log- based storage layout.

hdfview

Homepage:
Spack package:
Versions:
3.1.1, 3.0
Build Dependencies:
ant, hdf5, hdf
Link Dependencies:
hdf5, hdf
Description:
HDFView is a visual tool written in Java for browsing and editing HDF (HDF5 and HDF4) files.

healpix-cxx

Homepage:
Spack package:
Versions:
3.50.0
Build Dependencies:
gnuconfig, cfitsio, libsharp
Link Dependencies:
cfitsio
Description:
Healpix-CXX is a C/C++ library for calculating Hierarchical Equal Area isoLatitude Pixelation of a sphere.

heaptrack

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
cmake, boost, elfutils, libunwind, zlib, zstd
Link Dependencies:
boost, elfutils, libunwind, zlib, zstd
Description:
Heaptrack is a heap memory profiler that traces all memory allocations and annotates these events with stack traces.

heasoft

Homepage:
Spack package:
Versions:
6.30, 6.29
Build Dependencies:
gnuconfig, zlib, ncurses, curl, libxt, libx11, readline, libpng, perl-extutils-makemaker, py-numpy, python
Link Dependencies:
zlib, ncurses, curl, libxt, libx11, readline, libpng, perl-extutils-makemaker, py-numpy
Run Dependencies:
python
Description:
A Unified Release of the FTOOLS and XANADU Software Packages. XANADU: High-level, multi-mission tasks for X-ray astronomical spectral, timing, and imaging data analysis. FTOOLS: General and mission-specific tools to manipulate FITS files. FITSIO: Core library responsible for reading and writing FITS files. fv: General FITS file browser/editor/plotter with a graphical user interface. XSTAR: Tool for calculating the physical conditions and emission spectra of photoionized gases

heffte

Homepage:
Spack package:
Versions:
develop, 2.2.0, 2.1.0, 2.0.0, 1.0, 0.2, 0.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, python, py-mpi4py, py-numpy, py-numba, mpi, fftw, intel-mkl, rocfft, magma, hipblas, hipsparse
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, rocfft
Run Dependencies:
cuda, cmake, python, py-mpi4py, py-numpy, py-numba, mpi, fftw, intel-mkl, magma, hipblas, hipsparse
Description:
Highly Efficient FFT for Exascale

helib

Homepage:
Spack package:
Versions:
2.2.1, 2.2.0, 2.1.0, 2.0.0, 1.3.1, 1.3.0, 1.2.0, 1.1.0-beta.0, 1.1.0, 1.0.2
Build Dependencies:
cmake, gmp, ntl
Link Dependencies:
gmp, ntl
Description:
HElib is an open-source (Apache License v2.0) software library that implements homomorphic encryption (HE). Currently available schemes are the implementations of the Brakerski-Gentry-Vaikuntanathan (BGV) scheme with bootstrapping and the Approximate Number scheme of Cheon-Kim-Kim- Song (CKKS), along with many optimizations to make homomorphic evaluation run faster, focusing mostly on effective use of the Smart- Vercauteren ciphertext packing techniques and the Gentry-Halevi-Smart optimizations.

helics

Homepage:
Spack package:
Versions:
develop, main, master, 3.2.0, 3.0.1, 3.0.0, 2.8.0, 2.7.1, 2.7.0, 2.6.1, 2.6.0, 2.5.2, 2.5.1, 2.5.0, 2.4.2, 2.4.1
Build Dependencies:
cmake, git, boost, swig, libzmq, mpi, python
Link Dependencies:
libzmq, mpi, python
Run Dependencies:
python
Description:
HELICS is a general-purpose, modular, highly-scalable co-simulation framework that runs cross-platform (Linux, Windows, and Mac OS X) and supports both event driven and time series simulation.

help2man

Homepage:
Spack package:
Versions:
1.47.16, 1.47.11, 1.47.8, 1.47.4
Build Dependencies:
gnuconfig, perl
Run Dependencies:
perl
Description:
help2man produces simple manual pages from the '--help' and '--version' output of other commands.

henson

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, mpi, python
Link Dependencies:
mpi
Run Dependencies:
python
Description:
Cooperative multitasking for in situ processing.

hepmc

Homepage:
Spack package:
Versions:
2.06.11, 2.06.10, 2.06.09, 2.06.08, 2.06.07, 2.06.06, 2.06.05
Build Dependencies:
cmake
Description:
The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.

hepmc3

Homepage:
Spack package:
Versions:
3.2.4, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.2, 3.1.1, 3.1.0
Build Dependencies:
cmake, root, python
Link Dependencies:
root, python
Description:
The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.

hepmcanalysis

Homepage:
Spack package:
Versions:
3.4.13
Build Dependencies:
hepmc, fastjet, root, clhep
Link Dependencies:
hepmc, fastjet, root, clhep
Description:
The HepMCAnalysis Tool is a tool for generator validation and comparisons.

heppdt

Homepage:
Spack package:
Versions:
3.04.01, 3.04.00, 3.03.02, 3.03.01, 3.03.00, 2.06.01
Build Dependencies:
gnuconfig
Description:
The HepPID library contains translation methods for particle ID's to and from various Monte Carlo generators and the PDG standard numbering scheme. We realize that the generators adhere closely to the standard, but there are occasional differences.

heputils

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3.0, 1.2.1, 1.2.0, 1.1.0, 1.0.8, 1.0.7, 1.0.6, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Description:
Generic tools for high energy physics, e.g. vectors, event records, math and other util functions.

hercules

Homepage:
Spack package:
Versions:
10.7.2
Build Dependencies:
protobuf, go
Run Dependencies:
py-labours
Description:
Hercules is an amazingly fast and highly customizable Git repository analysis engine written in Go.

hermes

Homepage:
Spack package:
Versions:
master, 0.4.0-beta
Build Dependencies:
cmake, mochi-thallium, catch2, or-tools, mpi, hdf5
Link Dependencies:
mochi-thallium, catch2, or-tools, mpi, hdf5
Description:
Hermes is a heterogeneous-aware, multi-tiered, dynamic, and distributed I/O buffering system that aims to significantly accelerate I/O performance.

herwig3

Homepage:
Spack package:
Versions:
7.2.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, lhapdf, lhapdfsets, thepeg, boost, python, gsl, fastjet, vbfnlo, madgraph5amc, njet, py-gosam, gosam-contrib, openloops
Link Dependencies:
lhapdf, lhapdfsets, thepeg, boost, gsl, fastjet, vbfnlo, madgraph5amc, njet, py-gosam, gosam-contrib, openloops
Run Dependencies:
python
Description:
Herwig is a multi-purpose particle physics event generator.

herwigpp

Homepage:
Spack package:
Versions:
2.7.1
Build Dependencies:
gnuconfig, gsl, boost, fastjet, thepeg
Link Dependencies:
gsl, boost, fastjet, thepeg
Description:
Herwig is a multi-purpose particle physics event generator. This package provides old Herwig++ 2 generator

hevea

Homepage:
Spack package:
Versions:
develop, 2.35, 2.34, 2.33, 2.32
Build Dependencies:
ocaml, ocamlbuild
Link Dependencies:
ocaml, ocamlbuild
Description:
Hevea a fast Latex to HTML translator

hibench

Homepage:
Spack package:
Versions:
7.1, 7.0, 6.0, 5.0, 4.1, 4.0, 3.0.0, 2.2.1, 2.2
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
HiBench is a big data benchmark suite that helps evaluate different big data frameworks in terms of speed, throughput and system resource utilizations. It contains a set of Hadoop,Spark and streaming workloads, including Sort, WordCount, TeraSort, Repartition, Sleep, SQL,PageRank, Nutch indexing, Bayes, Kmeans, NWeight and enhanced DFSIO, etc.

hic-pro

Homepage:
Spack package:
Versions:
2.10.0
Build Dependencies:
bowtie2, samtools, python, r, py-numpy, py-scipy, py-pysam, py-bx-python, r-rcolorbrewer, r-ggplot2
Link Dependencies:
bowtie2, samtools, python, r
Run Dependencies:
py-numpy, py-scipy, py-pysam, py-bx-python, r-rcolorbrewer, r-ggplot2
Description:
HiC-Pro is a package designed to process Hi-C data, from raw fastq files (paired-end Illumina data) to the normalized contact maps

hicolor-icon-theme

Homepage:
Spack package:
Versions:
0.17
Build Dependencies:
gnuconfig
Description:
icon-theme contains the standard also references the default icon theme called hicolor.

hicops

Homepage:
Spack package:
Versions:
develop, release
Build Dependencies:
cmake, py-numpy, py-python-dateutil, py-setuptools, py-bottleneck, py-pyparsing, py-subprocess32, py-six, py-setuptools-scm, py-et-xmlfile, py-argparse, py-cython, py-cycler, py-pytz, py-kiwisolver, py-numexpr, py-matplotlib, py-jdcal, py-pandas, py-openpyxl, python, boost, mpich, git, pkgconfig
Link Dependencies:
py-numpy, py-python-dateutil, py-setuptools, py-bottleneck, py-pyparsing, py-subprocess32, py-six, py-setuptools-scm, py-et-xmlfile, py-argparse, py-cython, py-cycler, py-pytz, py-kiwisolver, py-numexpr, py-matplotlib, py-jdcal, py-pandas, py-openpyxl, python, boost, mpich
Description:
HiCOPS is a software framework for accelerating database peptide search workflows on supercomputers. HiCOPS provided algorithm-independent parallelizations and optimizations can be extended into new HPC database search algorithms or scalably accelerate the existing ones.

highfive

Homepage:
Spack package:
Versions:
2.3.1, 2.3, 2.2.2, 2.2.1, 2.2, 2.0, 1.5, 1.2, 1.1, 1.0
Build Dependencies:
cmake, boost, hdf5
Link Dependencies:
boost, hdf5
Description:
HighFive - Header only C++ HDF5 interface

highwayhash

Homepage:
Spack package:
Versions:
dfcb97
Description:
Strong (well-distributed and unpredictable) hashes: - Portable implementation of SipHash - HighwayHash, a 5x faster SIMD hash with security claims

hiop

Homepage:
Spack package:
Versions:
develop, master, 0.6.2, 0.6.1, 0.6.0, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.6, 0.4.5, 0.4.4, 0.4.3, 0.4.2, 0.4.1, 0.4, 0.3.99.3, 0.3.99.2, 0.3.99.1, 0.3.99.0, 0.3, 0.2, 0.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, lapack, blas, mpi, magma, raja, ginkgo, umpire, hipblas, hipsparse, suite-sparse, coinhsl, metis
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, lapack, blas, mpi, magma, raja, ginkgo, umpire, hipblas, hipsparse, suite-sparse, coinhsl, metis
Description:
HiOp is an optimization solver for solving certain mathematical optimization problems expressed as nonlinear programming problems. HiOp is a lightweight HPC solver that leverages application"s existing data parallelism to parallelize the optimization iterations by using specialized linear algebra kernels.

hip

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, perl, gl, hip-rocclr, hsakmt-roct, hsa-rocr-dev, comgr, llvm-amdgpu, rocminfo, roctracer-dev-api, numactl, perl-file-which, perl-uri-encode
Link Dependencies:
gl, hip-rocclr, hsakmt-roct, hsa-rocr-dev, comgr, llvm-amdgpu, rocminfo, roctracer-dev-api, numactl, perl-file-which, perl-uri-encode
Run Dependencies:
perl
Description:
HIP is a C++ Runtime API and Kernel Language that allows developers to create portable applications for AMD and NVIDIA GPUs from single source code.

hip-rocclr

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsakmt-roct, hsa-rocr-dev, comgr
Link Dependencies:
gl, libelf, numactl, hsakmt-roct, hsa-rocr-dev, comgr
Description:
Hip-ROCclr is a virtual device interface that compute runtimes interact with to different backends such as ROCr or PAL This abstraction allows runtimes to work on Windows as well as on Linux without much effort.

hipace

Homepage:
Spack package:
Versions:
develop, 21.09
Build Dependencies:
cmake, cuda, mpi, openpmd-api, fftw, pkgconfig, llvm-openmp, rocfft, rocprim, rocrand
Link Dependencies:
cuda, mpi, openpmd-api, fftw, llvm-openmp, rocfft, rocprim, rocrand
Description:
Highly efficient Plasma Accelerator Emulation, quasistatic particle-in- cell code

hipblas

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, rocsolver, rocblas, comgr, rocm-cmake
Link Dependencies:
hip, rocsolver, rocblas
Test Dependencies:
googletest, netlib-lapack, boost
Description:
hipBLAS is a BLAS marshalling library, with multiple supported backends

hipcub

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, rocprim, rocm-cmake
Link Dependencies:
numactl, hip, rocprim
Description:
Radeon Open Compute Parallel Primitives Library

hipfft

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0
Build Dependencies:
cmake, rocm-cmake, hip, rocfft
Link Dependencies:
hip, rocfft
Description:
hipFFT is an FFT marshalling library. Currently, hipFFT supports either rocFFT or cuFFT as backends.hipFFT exports an interface that does not require the client to change, regardless of the chosen backend. It sits between the application and the backend FFT library, marshalling inputs into the backend and results back to the application.

hipfort

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0
Build Dependencies:
cmake, rocm-cmake, hip
Description:
Radeon Open Compute Parallel Primitives Library

hipify-clang

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, llvm-amdgpu
Link Dependencies:
llvm-amdgpu
Description:
hipify-clang is a clang-based tool for translation CUDA sources into HIP sources

hipsolver

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0
Build Dependencies:
cmake, hip, rocblas, rocsolver, rocm-cmake
Link Dependencies:
hip, rocblas, rocsolver
Description:
hipSOLVER is a LAPACK marshalling library, with multiple supported backends. It sits between the application and a 'worker' LAPACK library, marshalling inputs into the backend library and marshalling results back to the application. hipSOLVER exports an interface that does not require the client to change, regardless of the chosen backend. Currently, hipSOLVER supports rocSOLVER and cuSOLVER as backends.

hipsparse

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, git, rocm-cmake, hip, rocsparse, rocprim
Link Dependencies:
hip, rocsparse, rocprim
Description:
hipSPARSE is a SPARSE marshalling library, with multiple supported backends

hipsycl

Homepage:
Spack package:
Versions:
stable, 0.9.2, 0.9.1, 0.8.0
Build Dependencies:
cmake, boost, python, llvm, cuda
Link Dependencies:
boost, python, llvm, cuda
Description:
hipSYCL is an implementation of the SYCL standard programming model over NVIDIA CUDA/AMD HIP

hiredis

Homepage:
Spack package:
Versions:
0.14.1, 0.14.0, 0.13.3, 0.13.2
Description:
Hiredis is a minimalistic C client library for the Redis database.

hisat2

Homepage:
Spack package:
Versions:
2.2.0, 2.1.0
Description:
HISAT2 is a fast and sensitive alignment program for mapping next- generation sequencing reads (whole-genome, transcriptome, and exome sequencing data) against the general human population (as well as against a single reference genome).

hisea

Homepage:
Spack package:
Versions:
2017.12.26
Build Dependencies:
boost
Link Dependencies:
boost
Description:
HISEA is an efficient all-vs-all long read aligner for SMRT sequencing data. Its algorithm is designed to produce highest alignment sensitivity among others.

hive

Homepage:
Spack package:
Versions:
3.1.2, 2.3.6, 1.2.2
Run Dependencies:
hadoop
Description:
The Apache Hive data warehouse software facilitates reading, writing, and managing large datasets residing in distributed storage using SQL. Structure can be projected onto data already in storage. A command line tool and JDBC driver are provided to connect users to Hive.

hivex

Homepage:
Spack package:
Versions:
1.3.19, 1.3.18, 1.3.17
Build Dependencies:
gnuconfig, perl
Link Dependencies:
perl
Description:
Windows Registry "hive" extraction library.

hmmer

Homepage:
Spack package:
Versions:
3.3.2, 3.3, 3.2.1, 3.1b2, 3.0, 2.4i, 2.3.2, 2.3.1
Build Dependencies:
mpi, gsl
Link Dependencies:
mpi, gsl
Description:
HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).

hohqmesh

Homepage:
Spack package:
Versions:
1.2.1, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
cmake, ftobjectlibrary
Link Dependencies:
ftobjectlibrary
Description:
High Order mesh generator for Hexahedral and Quadrilateral meshes.

homer

Homepage:
Spack package:
Versions:
4.9.1
Build Dependencies:
perl
Run Dependencies:
perl, r-biocgenerics, r-biocparallel, r-edger, r-deseq2
Description:
Software for motif discovery and next generation sequencing analysis

hoomd-blue

Homepage:
Spack package:
Versions:
develop, 2.2.2, 2.1.6
Build Dependencies:
cmake, python, py-numpy, pkgconfig, mpi, cuda, doxygen
Link Dependencies:
python, mpi, cuda
Run Dependencies:
python, py-numpy
Description:
HOOMD-blue is a general-purpose particle simulation toolkit. It scales from a single CPU core to thousands of GPUs. You define particle initial conditions and interactions in a high-level python script. Then tell HOOMD-blue how you want to execute the job and it takes care of the rest. Python job scripts give you unlimited flexibility to create custom initialization routines, control simulation parameters, and perform in situ analysis.

hoppet

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig
Description:
A Fortran 95 package for carrying out QCD DGLAP evolution and other common manipulations of parton distribution functions (PDFs).

hotspot

Homepage:
Spack package:
Versions:
6.0
Description:
HotSpot is an accurate and fast thermal model suitable for use ini architectural studies.

hpcc

Homepage:
Spack package:
Versions:
develop, 1.5.0
Build Dependencies:
gmake, mpi, blas, fftw-api, mkl
Link Dependencies:
mpi, blas, fftw-api, mkl
Description:
HPC Challenge is a benchmark suite that measures a range memory access patterns. The HPC Challenge benchmark consists of basically 7 tests: 1) HPL - the Linpack TPP benchmark which measures the floating point rate of execution for solving a linear system of equations. 2) DGEMM - measures the floating point rate of execution of double precision real matrix-matrix multiplication. 3) STREAM - a simple synthetic benchmark program that measures sustainable memory bandwidth (in GB/s) and the corresponding computation rate for simple vector kernel. 4) PTRANS (parallel matrix transpose) - exercises the communications where pairs of processors communicate with each other simultaneously. It is a useful test of the total communications capacity of the network. 5) RandomAccess - measures the rate of integer random updates of memory (GUPS). 6) FFT - measures the floating point rate of execution of double precision complex one-dimensional Discrete Fourier Transform (DFT). 7) Communication bandwidth and latency - a set of tests to measure latency and bandwidth of a number of simultaneous communication patterns; based on b_eff (effective bandwidth benchmark).

hpccg

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. Intended to be the 'best approximation to an unstructured implicit finite element or finite volume application in 800 lines or fewer.'

hpcg

Homepage:
Spack package:
Versions:
develop, 3.1
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
HPCG is a software package that performs a fixed number of multigrid preconditioned (using a symmetric Gauss-Seidel smoother) conjugate gradient (PCG) iterations using double precision (64 bit) floating point values.

hpctoolkit

Homepage:
Spack package:
Versions:
develop, master, 2022.05.15, 2022.04.15, 2022.01.15, 2021.10.15, 2021.05.15, 2021.03.01, 2020.08.03, 2020.07.21, 2020.06.12, 2020.03.01, 2019.12.28, 2019.08.14, 2018.12.28, 2018.11.05
Build Dependencies:
gnuconfig, boost, dyninst, gotcha, intel-tbb, libdwarf, libmonitor, libunwind, mbedtls, xerces-c, zlib, cuda, oneapi-level-zero, intel-xed, memkind, papi, libpfm4, mpi, hip, hsa-rocr-dev, roctracer-dev, rocprofiler-dev, python
Link Dependencies:
binutils, boost, bzip2, dyninst, elfutils, gotcha, intel-tbb, libdwarf, libmonitor, libunwind, mbedtls, xerces-c, xz, zlib, cuda, oneapi-level-zero, intel-xed, papi, libpfm4, mpi, hip, hsa-rocr-dev, roctracer-dev, rocprofiler-dev
Run Dependencies:
memkind, hpcviewer
Description:
HPCToolkit is an integrated suite of tools for measurement and analysis of program performance on computers ranging from multicore desktop systems to the nation's largest supercomputers. By using statistical sampling of timers and hardware performance counters, HPCToolkit collects accurate measurements of a program's work, resource consumption, and inefficiency and attributes them to the full calling context in which they occur.

hpcviewer

Homepage:
Spack package:
Versions:
2022.03, 2022.01, 2021.10, 2021.05, 2021.03, 2021.01, 2020.12, 2020.07, 2020.05, 2020.04, 2020.02, 2020.01, 2019.12, 2019.09, 2019.08, 2019.07, 2019.04, 2019.02
Build Dependencies:
java
Run Dependencies:
java
Description:
Binary distribution of hpcviewer and integrated hpctraceviewer for the Rice HPCToolkit (Linux x86_64, ppc64le and aarch64, and MacOSX x86_64). Note: hpctoolkit databases are platform independent, so you don't need to install hpctoolkit to run the viewers and it's common to run hpcrun and hpcviewer on different machines.

hpcx-mpi

Homepage:
Spack package:
Description:
The HPC-X MPI implementation from NVIDIA/Mellanox based on OpenMPI. This package is for external specs only.

hpddm

Homepage:
Spack package:
Versions:
main, 2.1.2
Build Dependencies:
mpi, blas, lapack, mumps, hypre, scalapack, arpack-ng, python
Link Dependencies:
mpi, blas, lapack, mumps, hypre, scalapack, arpack-ng, python
Description:
High-performance unified framework for domain decomposition methods.

hpgmg

Homepage:
Spack package:
Versions:
develop, 0.4, 0.3, a0a5510df23b
Build Dependencies:
petsc, mpi, cuda, python
Link Dependencies:
petsc, mpi, cuda
Description:
HPGMG implements full multigrid (FMG) algorithms using finite-volume and finite-element methods. Different algorithmic variants adjust the arithmetic intensity and architectural properties that are tested. These FMG methods converge up to discretization error in one F-cycle, thus may be considered direct solvers. An F-cycle visits the finest level a total of two times, the first coarsening (8x smaller) 4 times, the second coarsening 6 times, etc.

hping

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, libpcap, tcl
Link Dependencies:
libpcap, tcl
Description:
hping is a command-line oriented TCP/IP packet assembler/analyzer.

hpl

Homepage:
Spack package:
Versions:
2.3, 2.2
Build Dependencies:
gnuconfig, mpi, blas
Link Dependencies:
mpi, blas
Description:
HPL is a software package that solves a (random) dense linear system in double precision (64 bits) arithmetic on distributed-memory computers. It can thus be regarded as a portable as well as freely available implementation of the High Performance Computing Linpack Benchmark.

hpx

Homepage:
Spack package:
Versions:
master, stable, 1.7.1, 1.7.0, 1.6.0, 1.5.1, 1.5.0, 1.4.1, 1.4.0, 1.3.0, 1.2.1, 1.2.0, 1.1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, python, ninja, pkgconfig, git, hwloc, boost, asio, gperftools, jemalloc, mimalloc, tbb, mpi, otf2, papi, valgrind
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hwloc, boost, asio, gperftools, jemalloc, mimalloc, tbb, mpi, otf2, papi, valgrind
Run Dependencies:
python
Test Dependencies:
python
Description:
C++ runtime system for parallel and distributed applications.

hpx-kokkos

Homepage:
Spack package:
Versions:
master, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, hpx, kokkos
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hpx, kokkos
Description:
HPXKokkos is an interoperability library for HPX and Kokkos

hpx5

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.1.0, 3.0.0, 2.2.0, 2.1.0, 2.0.0
Build Dependencies:
gnuconfig, autoconf, automake, hwloc, jemalloc, libtool, m4, metis, mpi, opencl, pkgconfig
Link Dependencies:
hwloc, jemalloc, metis, mpi, opencl
Description:
The HPX-5 Runtime System. HPX-5 (High Performance ParalleX) is an open source, portable, performance-oriented runtime developed at CREST (Indiana University). HPX-5 provides a distributed programming model allowing programs to run unmodified on systems from a single SMP to large clusters and supercomputers with thousands of nodes. HPX-5 supports a wide variety of Intel and ARM platforms. It is being used by a broad range of scientific applications enabling scientists to write code that performs and scales better than contemporary runtimes.

hsa-rocr-dev

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, xxd, hsakmt-roct, llvm-amdgpu, rocm-device-libs
Link Dependencies:
elf, hsakmt-roct, llvm-amdgpu, rocm-device-libs
Description:
This repository includes the user mode API nterfaces and libraries necessary for host applications to launch computer kernels to available HSA ROCm kernel agents.AMD Heterogeneous System Architecture HSA - Linux HSA Runtime for Boltzmann (ROCm) platforms.

hsakmt

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
gnuconfig
Description:
hsakmt is a thunk library that provides a userspace interface to amdkfd (AMD's HSA Linux kernel driver). It is the HSA equivalent of libdrm.

hsakmt-roct

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, pkgconfig, numactl, libdrm
Link Dependencies:
numactl, libdrm
Description:
This is a thunk python recipe to build and install Thunk Interface. Thunk Interface is a user-mode API interfaces used to interact with the ROCk driver.

hsf-cmaketools

Homepage:
Spack package:
Versions:
master, 1.8
Description:
CMake 'Find' modules for commonly used HEP Packages

hssp

Homepage:
Spack package:
Versions:
3.0.10, 3.0.9, 3.0.8, 3.0.7, 3.0.6, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, boost
Link Dependencies:
boost
Description:
The source code for building the mkhssp and hsspconv programs is bundled in the hssp project. The mkhssp executable creates stockholm files with hssp annotations in them. The hsspconv executable converts stockholm to the original hssp format.

hstr

Homepage:
Spack package:
Versions:
1.22
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, ncurses, readline
Link Dependencies:
ncurses, readline
Description:
hstr(hh) is a shell history suggest box for Bash and Zsh, which enables easy viewing, searching and using your command history.

hto4l

Homepage:
Spack package:
Versions:
2.02
Build Dependencies:
gsl
Link Dependencies:
gsl
Description:
Hto4l is an event generator for the SM Higgs decay into 4 charged leptons up to NLOPS electroweak accuracy and in presence of dimension-6 operators.

htop

Homepage:
Spack package:
Versions:
3.2.0, 3.1.2, 3.1.1, 3.0.5, 2.2.0, 2.0.2
Build Dependencies:
gnuconfig, ncurses, m4, autoconf, automake, libtool, hwloc, python
Link Dependencies:
ncurses, hwloc
Description:
htop is an interactive text-mode process viewer for Unix systems.

htslib

Homepage:
Spack package:
Versions:
1.14, 1.13, 1.12, 1.11, 1.10.2, 1.9, 1.8, 1.7, 1.6, 1.5, 1.4, 1.3.1, 1.2
Build Dependencies:
gnuconfig, zlib, bzip2, xz, curl, libdeflate, m4, autoconf, automake, libtool
Link Dependencies:
zlib, bzip2, xz, curl, libdeflate, m4, autoconf, automake, libtool
Description:
C library for high-throughput sequencing data formats.

http-get

Homepage:
Spack package:
Versions:
2018-05-23
Description:
Http_get fetches an HTTP URL and dumps the contents to stdout. It does not do gopher, ftp, file, news, or any other type of URL, only HTTP. It can be configured to do HTTPS fetches as well.

http-load

Homepage:
Spack package:
Versions:
2016-03-09
Description:
http_load - multiprocessing http test client

http-parser

Homepage:
Spack package:
Versions:
2.9.4, 2.9.3, 2.9.2, 2.9.1
Description:
http request/response parser for c

http-ping

Homepage:
Spack package:
Versions:
2016-03-09
Description:
http_ping is like the regular ping command, except that it sends HTTP requests instead of ICMP echo requests.

http-post

Homepage:
Spack package:
Versions:
2018-05-18
Description:
Http_post does a POST operation to an HTTP URL and dumps the results to stdout. It does not do gopher, ftp, file, news, or any other type of URL, only HTTP. It can be configured to do HTTPS POSTs as well.

httpd

Homepage:
Spack package:
Versions:
2.4.43, 2.4.41, 2.4.39, 2.4.38
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, apr, apr-util, pcre
Link Dependencies:
apr, apr-util, pcre
Description:
The Apache HTTP Server is a powerful and flexible HTTP/1.1 compliant web server.

httperf

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Httperf is a tool for measuring web server performance. It provides a flexible facility for generating various HTTP workloads and for measuring server performance.

httpie

Homepage:
Spack package:
Versions:
2.6.0, 2.5.0, 0.9.9, 0.9.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-charset-normalizer, py-defusedxml, py-pygments, py-requests, py-requests-toolbelt, py-argparse
Run Dependencies:
python, py-setuptools, py-charset-normalizer, py-defusedxml, py-pygments, py-requests, py-requests-toolbelt, py-argparse
Description:
Modern, user-friendly command-line HTTP client for the API era.

httping

Homepage:
Spack package:
Versions:
2.5, 2.3.4, 2.3.3, 2.3.1, 2.3
Build Dependencies:
gnuconfig
Description:
Httping is like 'ping' but for http-requests. Give it an url, and it'll show you how long it takes to connect, send a request and retrivee the reply(only the headers), Be aware that the transmission across the network also takes time! So it measures the latency. of the webserver + network. It supports, of course, IPv6. httping was analyzed by Coverity Scan for software defects.

httpress

Homepage:
Spack package:
Versions:
develop, 1.1.0
Build Dependencies:
mercurial, libev, gnutls
Link Dependencies:
libev, gnutls
Description:
High performance HTTP server stress & benchmark utility.

hub

Homepage:
Spack package:
Versions:
master, 2.2.2, 2.2.1, 2.2.0, 1.12.4
Build Dependencies:
go
Run Dependencies:
go
Description:
The github git wrapper

hudi

Homepage:
Spack package:
Versions:
0.5.3
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Hudi stands for Hadoop Upserts Deletes and Incrementals. Hudi manages the storage of large analytical datasets on DFS.

hugo

Homepage:
Spack package:
Versions:
0.74.3, 0.68.3, 0.53
Build Dependencies:
go
Description:
The world's fastest framework for building websites.

hunspell

Homepage:
Spack package:
Versions:
1.7.0, 1.6.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext
Link Dependencies:
gettext
Description:
The most popular spellchecking library (sez the author...).

hw-probe

Homepage:
Spack package:
Versions:
1.5, 1.4, 1.3
Description:
Hardware Probe Tool (hw-probe).

hwdata

Homepage:
Spack package:
Versions:
0.345, 0.340
Build Dependencies:
gnuconfig
Description:
Hardware identification and configuration data.

hwloc

Homepage:
Spack package:
Versions:
master, 2.7.1, 2.7.0, 2.6.0, 2.5.0, 2.4.1, 2.4.0, 2.3.0, 2.2.0, 2.1.0, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0, 1.11.13, 1.11.12, 1.11.11, 1.11.10, 1.11.9, 1.11.8, 1.11.7, 1.11.6, 1.11.5, 1.11.4, 1.11.3, 1.11.2, 1.11.1, 1.9
Build Dependencies:
gnuconfig, pkgconfig, m4, autoconf, automake, libtool, cuda, gl, libpciaccess, libxml2, cairo, numactl, ncurses, mpi, rocm-smi-lib, rocm-opencl, llvm-amdgpu
Link Dependencies:
cuda, gl, libpciaccess, libxml2, cairo, numactl, ncurses, mpi, rocm-smi-lib, rocm-opencl, llvm-amdgpu
Description:
The Hardware Locality (hwloc) software project. The Portable Hardware Locality (hwloc) software package provides a portable abstraction (across OS, versions, architectures, ...) of the hierarchical topology of modern architectures, including NUMA memory nodes, sockets, shared caches, cores and simultaneous multithreading. It also gathers various system attributes such as cache and memory information as well as the locality of I/O devices such as network interfaces, InfiniBand HCAs or GPUs. It primarily aims at helping applications with gathering information about modern computing hardware so as to exploit it accordingly and efficiently.

hybpiper

Homepage:
Spack package:
Versions:
1.3.1, 1.2.0
Build Dependencies:
python, py-biopython, exonerate, blast-plus, spades, parallel, bwa, samtools
Link Dependencies:
exonerate, blast-plus, spades, parallel, bwa, samtools
Run Dependencies:
python, py-biopython
Description:
HybPiper was designed for targeted sequence capture, in which DNA sequencing libraries are enriched for gene regions of interest, especially for phylogenetics. HybPiper is a suite of Python scripts that wrap and connect bioinformatics tools in order to extract target sequences from high-throughput DNA sequencing reads

hybrid-lambda

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, boost
Link Dependencies:
boost
Test Dependencies:
cppunit
Description:
Hybrid-Lambda is a software package that can simulate gene trees within a rooted species network or a rooted species tree under the coalescent process. The main feature of this program is that users can choose to use the standard Kingman coalescent process, which produces bifurcating genealogies, or two other Lambda coalescent processes, which produce multifurcating genealogies. The other feature is that hybrid sim uses extended Newick formatted strings to make it easier to represent hybridization events between species.

hybridsim

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
dramsim2, nvdimmsim
Link Dependencies:
dramsim2, nvdimmsim
Description:
HybridSim provides cycle-accurate simulation of a non-volatile memory system augmented with a DRAM based cache. It uses DRAMSim2 for the DRAM model and NVDIMMSim for the non-volatile memory model

hydra

Homepage:
Spack package:
Versions:
3.2
Build Dependencies:
gnuconfig
Description:
Hydra is a process management system for starting parallel jobs. Hydra is designed to natively work with existing launcher daemons (such as ssh, rsh, fork), as well as natively integrate with resource management systems (such as slurm, pbs, sge).

hydrogen

Homepage:
Spack package:
Versions:
develop, 1.5.1, 1.5.0, 1.4.0, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.0, 1.1.0-1, 1.1.0, 1.0.1, 1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, hwloc, openblas, intel-mkl, veclibfort, essl, netlib-lapack, cray-libsci, aluminum, lapack, scalapack, gmp, mpc, mpfr, cub, hipcub, half, llvm-openmp, ninja
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, hwloc, openblas, intel-mkl, veclibfort, essl, netlib-lapack, cray-libsci, aluminum, lapack, scalapack, gmp, mpc, mpfr, cub, hipcub, half, llvm-openmp
Description:
Hydrogen: Distributed-memory dense and sparse-direct linear algebra and optimization library. Based on the Elemental library.

hyperfine

Homepage:
Spack package:
Versions:
1.13.0, 1.12.0
Build Dependencies:
rust
Link Dependencies:
rust
Description:
A command-line benchmarking tool.

hyperscan

Homepage:
Spack package:
Versions:
v5.2.1
Build Dependencies:
cmake, boost, pcre, ragel
Link Dependencies:
boost, pcre
Description:
High-performance regular expression matching library.

hyphen

Homepage:
Spack package:
Versions:
master, 2.8.8
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
A library of text hyphenation.

hyphy

Homepage:
Spack package:
Versions:
2.3.14
Build Dependencies:
cmake, curl
Link Dependencies:
curl
Description:
HyPhy: Hypothesis testing using Phylogenies

hypre

Homepage:
Spack package:
Versions:
develop, 2.24.0, 2.23.0, 2.22.1, 2.22.0, 2.21.0, 2.20.0, 2.19.0, 2.18.2, 2.18.1, 2.18.0, 2.17.0, 2.16.0, 2.15.1, 2.15.0, 2.14.0, 2.13.0, 2.12.1, 2.11.2, 2.11.1, 2.10.1, 2.10.0b
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gnuconfig, mpi, blas, lapack, superlu-dist
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, blas, lapack, superlu-dist
Description:
Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems.

hypre-cmake

Homepage:
Spack package:
Versions:
develop, 2.22.0
Build Dependencies:
cuda, cmake, mpi, blas, lapack, superlu-dist
Link Dependencies:
cuda, mpi, blas, lapack, superlu-dist
Description:
Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems.

hztool

Homepage:
Spack package:
Versions:
4.3.2, 4.3, 4.2, 4.1, 4.0
Build Dependencies:
gnuconfig
Description:
HZTool is a library of routines which will allow you to reproduce an experimental result using the four-vector final state from Monte Carlo generators.

i3

Homepage:
Spack package:
Versions:
4.14.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, libev, startup-notification, xcb-util-cursor, xcb-util-keysyms, xcb-util-wm, xcb-util-xrm, libxkbcommon, yajl, cairo, pango
Link Dependencies:
libev, startup-notification, xcb-util-cursor, xcb-util-keysyms, xcb-util-wm, xcb-util-xrm, libxkbcommon, yajl, cairo, pango
Description:
i3, improved tiling wm. i3 is a tiling window manager, completely written from scratch. The target platforms are GNU/Linux and BSD operating systems, our code is Free and Open Source Software (FOSS) under the BSD license. i3 is primarily targeted at advanced users and developers.

ibm-databroker

Homepage:
Spack package:
Versions:
master, 0.7.0, 0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, cmake, libevent, py-setuptools
Link Dependencies:
python, py-setuptools
Run Dependencies:
python, redis, libevent
Description:
The Data Broker (DBR) is a distributed, in-memory container of key-value stores enabling applications in a workflow to exchange data through one or more shared namespaces. Thanks to a small set of primitives, applications in a workflow deployed in a (possibly) shared nothing distributed cluster, can easily share and exchange data and messages with applications.

ibm-java

Homepage:
Spack package:
Description:
Binary distribution of the IBM Java Software Development Kit for big and little-endian powerpc (power7, 8 and 9). Note: IBM is fairly aggressive about taking down old versions, so old (and even current) versions may not be available.

ibmisc

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
cmake, python, eigen, everytrace, proj, blitz, netcdf-cxx4, udunits, googletest, py-cython, py-numpy, boost, doxygen
Link Dependencies:
eigen, everytrace, proj, blitz, netcdf-cxx4, udunits, boost
Run Dependencies:
python, py-cython, py-numpy
Description:
Misc. reusable utilities used by IceBin.

icarus

Homepage:
Spack package:
Versions:
v10_3
Build Dependencies:
gnuconfig, autoconf, bison, flex, gperf, readline, zlib
Link Dependencies:
readline, zlib
Description:
Icarus Verilog is a Verilog simulation and synthesis tool.

iceauth

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, libice, xproto, pkgconfig, util-macros
Link Dependencies:
libice, xproto
Description:
The iceauth program is used to edit and display the authorization information used in connecting with ICE. It operates very much like the xauth program for X11 connection authentication records.

icedtea

Homepage:
Spack package:
Versions:
3.9.0, 3.8.0, 3.7.0, 3.6.0, 3.5.1, 3.5.0, 3.4.0
Build Dependencies:
gnuconfig, pkgconfig, gmake, cups, jdk, libx11, xproto, libxext, libxtst, libxi, libxt, libxinerama, libxrender, libxcomposite, libxau, libxdmcp, gtkplus, freetype, wget, giflib, libpng, jpeg, lcms, zlib, alsa-lib
Link Dependencies:
cups, libx11, xproto, libxext, libxtst, libxi, libxt, libxinerama, libxrender, libxcomposite, libxau, libxdmcp, gtkplus, freetype, giflib, libpng, jpeg, lcms, zlib, alsa-lib
Description:
The IcedTea project provides a harness to build the source code from https://openjdk.java.net/ using Free Software build tools and adds a number of key features to the upstream OpenJDK codebase. IcedTea requires an existing IcedTea or OpenJDK install to build.

icet

Homepage:
Spack package:
Versions:
develop, 2.1.1
Build Dependencies:
cmake, mpi, gl
Link Dependencies:
mpi, gl
Description:
The Image Composition Engine for Tiles (IceT) is a high-performance sort-last parallel rendering library.

ico

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
ico is a simple animation program that may be used for testing various X11 operations and extensions. It displays a wire-frame rotating polyhedron, with hidden lines removed, or a solid-fill polyhedron with hidden faces removed.

icu4c

Homepage:
Spack package:
Versions:
67.1, 66.1, 65.1, 64.1, 60.3, 60.1, 58.3, 58.2, 57.2, 57.1
Build Dependencies:
gnuconfig, python
Description:
ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.

id3lib

Homepage:
Spack package:
Versions:
3.8.3
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
Library for manipulating ID3v1 and ID3v2 tags

idba

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
IDBA is a practical iterative De Bruijn Graph De Novo Assembler for sequence assembly in bioinfomatics.

idl

Homepage:
Spack package:
Description:
IDL Software: Interactive Data Visulation. Note: IDL is a licensed software. You will also need an existing downloaded tarball of IDL in your current directory or in a spack mirror in order to install.

iegenlib

Homepage:
Spack package:
Versions:
master, 2018-07-03
Build Dependencies:
cmake, autoconf, automake, libtool, texinfo, isl
Link Dependencies:
isl
Description:
Inspector/Executor Generation Library for manipulating sets and relations with uninterpreted function symbols.

ignite

Homepage:
Spack package:
Versions:
2.6.0, 2.5.0, 2.4.0, 2.3.0, 2.2.0
Run Dependencies:
java
Description:
Apache Ignite is a memory-centric distributed database, caching, and processing platform for transactional, analytical, and streaming workloads delivering in-memory speeds at petabyte scale.

igprof

Homepage:
Spack package:
Versions:
5.9.16
Build Dependencies:
cmake, libunwind
Link Dependencies:
libunwind
Description:
IgProf (the Ignominous Profiler) is a simple nice tool for measuring and analysing application memory and performance characteristics. IgProf requires no changes to the application or the build process. It currently works on Linux (ia32, x86_64).

igraph

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
gnuconfig, libxml2
Link Dependencies:
libxml2
Description:
igraph is a library for creating and manipulating graphs.

igv

Homepage:
Spack package:
Versions:
2.12.3, 2.8.0
Run Dependencies:
java
Description:
The Integrative Genomics Viewer (IGV) is a high-performance visualization tool for interactive exploration of large, integrated genomic datasets. It supports a wide variety of data types, including array-based and next-generation sequence data, and genomic annotations.

igvtools

Homepage:
Spack package:
Versions:
2.3.98
Build Dependencies:
java
Link Dependencies:
java
Description:
IGVTools suite of command-line utilities for preprocessing data files

ike-scan

Homepage:
Spack package:
Versions:
1.9
Build Dependencies:
gnuconfig
Description:
Discover and fingerprint IKE hosts (IPsec VPN Servers).

ilmbase

Homepage:
Spack package:
Versions:
2.3.0, 2.2.0, 2.0.1, 1.0.2, 0.9.0
Build Dependencies:
gnuconfig
Description:
OpenEXR ILM Base libraries (high dynamic-range image file format)

ima-evm-utils

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3, 1.2.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
IMA/EVM control utilities.

imagemagick

Homepage:
Spack package:
Versions:
7.0.8-7, 7.0.5-9, 7.0.2-7, 7.0.2-6
Build Dependencies:
gnuconfig, jpeg, pango, libtool, libpng, freetype, fontconfig, libtiff, ghostscript, ghostscript-fonts, libsm, pkgconfig
Link Dependencies:
jpeg, pango, libtool, libpng, freetype, fontconfig, libtiff, ghostscript, ghostscript-fonts, libsm
Description:
ImageMagick is a software suite to create, edit, compose, or convert bitmap images.

imake

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, xproto, pkgconfig
Link Dependencies:
xproto
Run Dependencies:
xorg-cf-files
Description:
The imake build system.

imgui

Homepage:
Spack package:
Versions:
1.85
Description:
Dear ImGui is a bloat-free graphical user interface library for C++. It outputs optimized vertex buffers that you can render anytime in your 3D-pipeline enabled application. It is fast, portable, renderer agnostic and self-contained (no external dependencies).

imlib2

Homepage:
Spack package:
Versions:
1.7.1, 1.7.0, 1.6.1, 1.6.0, 1.5.1
Build Dependencies:
gnuconfig, libtiff, giflib, bzip2, freetype, libxext, libpng, libid3tag, libjpeg-turbo, pkgconfig
Link Dependencies:
libtiff, giflib, bzip2, freetype, libxext, libpng, libid3tag, libjpeg-turbo
Description:
Library that does image file loading and saving as well as rendering, manipulation, arbitrary polygon support

imp

Homepage:
Spack package:
Versions:
2.8.0
Build Dependencies:
cmake, python, swig, boost, hdf5, eigen
Link Dependencies:
python, swig, boost, hdf5, eigen
Description:
IMP, the Integrative Modeling Platform.

impalajit-llvm

Homepage:
Spack package:
Versions:
develop, 1.0.0
Build Dependencies:
cmake, llvm, z3
Link Dependencies:
llvm, z3
Description:
Impala is a calculator-like language. This is a fork of the original ImpalaJIT project and was enhanced with LLVM JIT. Impala acts as a backend for `easi` project.

impute2

Homepage:
Spack package:
Versions:
2.3.2
Description:
IMPUTE2 is a genotype imputation and haplotype phasing program based on ideas from Howie et al. 2009.

infernal

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Infernal (INFERence of RNA ALignment) is for searching DNA sequence databases for RNA structure and sequence similarities. It is an implementation of a special case of profile stochastic context-free grammars called covariance models (CMs).

influxdb

Homepage:
Spack package:
Description:
InfluxDB is an open source time series platform.

iniparser

Homepage:
Spack package:
Versions:
4.1, 4.0, 3.2, 3.1
Description:
This modules offers parsing of ini files from the C level.

inputproto

Homepage:
Spack package:
Versions:
2.3.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Input Extension. This extension defines a protocol to provide additional input devices management such as graphic tablets.

intel

Homepage:
Spack package:
Versions:
20.0.4, 20.0.2, 20.0.1, 20.0.0, 19.1.2, 19.1.1, 19.1.0, 19.0.5, 19.0.4, 19.0.3, 19.0.1, 19.0.0, 18.0.5, 18.0.3, 18.0.2, 18.0.1, 18.0.0, 17.0.7, 17.0.6, 17.0.5, 17.0.4, 17.0.3, 17.0.2, 17.0.1, 17.0.0, 16.0.4, 16.0.3, 16.0.2, 15.0.6, 15.0.1
Build Dependencies:
patchelf
Description:
Intel Compilers.

intel-daal

Homepage:
Spack package:
Versions:
2020.2.254, 2020.1.217, 2020.0.166, 2019.5.281, 2019.4.243, 2019.3.199, 2019.2.187, 2019.1.144, 2019.0.117, 2018.3.222, 2018.2.199, 2018.1.163, 2018.0.128, 2017.4.239, 2017.3.196, 2017.2.174, 2017.1.132, 2017.0.098, 2016.3.210, 2016.2.181
Description:
Intel Data Analytics Acceleration Library.

intel-gpu-tools

Homepage:
Spack package:
Versions:
1.20, 1.16
Build Dependencies:
gnuconfig, libdrm, libpciaccess, libunwind, kmod, cairo, glib, flex, bison, python, pkgconfig, util-macros
Link Dependencies:
libdrm, libpciaccess, libunwind, kmod, cairo, glib
Description:
Intel GPU Tools is a collection of tools for development and testing of the Intel DRM driver. There are many macro-level test suites that get used against the driver, including xtest, rendercheck, piglit, and oglconform, but failures from those can be difficult to track down to kernel changes, and many require complicated build procedures or specific testing environments to get useful results. Therefore, Intel GPU Tools includes low-level tools and tests specifically for development and testing of the Intel DRM Driver.

intel-gtpin

Homepage:
Spack package:
Versions:
2.19, 2.13, 2.12, 2.11.4
Build Dependencies:
patchelf
Description:
Intel(R) GtPin is a dynamic binary instrumentation framework for GEN (Intel(R) graphics) Architecture. It is a unique SW platform for profiling a code running on GEN Execution Units (EUs). GTPin includes a binary instrumentation engine for Intel(R) GPUs EUs, along with an API for developing analysis tools, and many sample tools. GTPin allows you to capture a range of dynamic profiling data at the finest granularity of the specific GPU EU instruction. GTPin supports both compute and graphics workloads. It operates on regular, real-world GPU applications, as well as on pre-captured API streams. The technology enables fast and accurate dynamic analysis of the code that is executing on the GPU EUs. GTPin opens up new opportunities to perform dynamic, low level workload and HW analysis on an Intel(R) GPU, with greater efficiency than other current solutions. Some of the GTPin capabilities are integrated into Intel(R) VTune(TM) Profiler, Intel(R) Advisor, and the Intel(R) Graphics Performance Analyzers (Intel(R) GPA). GTPin is available, along with a set of analysis tools based on the GTPin framework. It also enables more advanced users to develop their own analysis tools. GTPin can analyze any GPU application. It also collects dynamic profiling data which the application executes on the GPU.

intel-ipp

Homepage:
Spack package:
Versions:
2020.2.254, 2020.1.217, 2020.0.166, 2019.5.281, 2019.4.243, 2019.3.199, 2019.2.187, 2019.1.144, 2019.0.117, 2018.4.274, 2018.3.222, 2018.2.199, 2018.0.128, 2017.3.196, 2017.2.174, 2017.1.132, 2017.0.098, 9.0.3.210
Description:
Intel Integrated Performance Primitives.

intel-llvm

Homepage:
Spack package:
Versions:
sycl
Build Dependencies:
cmake
Description:
Intel's version of the LLVM compiler.

intel-mkl

Homepage:
Spack package:
Versions:
2020.4.304, 2020.3.279, 2020.2.254, 2020.1.217, 2020.0.166, 2019.5.281, 2019.4.243, 2019.3.199, 2019.2.187, 2019.1.144, 2019.0.117, 2018.4.274, 2018.3.222, 2018.2.199, 2018.1.163, 2018.0.128, 2017.4.239, 2017.3.196, 2017.2.174, 2017.1.132, 2017.0.098, 11.3.3.210, 11.3.2.181
Build Dependencies:
cpio
Description:
Intel Math Kernel Library.

intel-mpi

Homepage:
Spack package:
Versions:
2019.10.317, 2019.9.304, 2019.8.254, 2019.7.217, 2019.6.166, 2019.5.281, 2019.4.243, 2019.3.199, 2019.2.187, 2019.1.144, 2019.0.117, 2018.4.274, 2018.3.222, 2018.2.199, 2018.1.163, 2018.0.128, 2017.4.239, 2017.3.196, 2017.2.174, 2017.1.132, 5.1.3.223
Build Dependencies:
libfabric
Link Dependencies:
libfabric
Run Dependencies:
libfabric
Description:
Intel MPI

intel-mpi-benchmarks

Homepage:
Spack package:
Versions:
2019.6, 2019.5, 2019.4, 2019.3, 2019.2
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Intel(R) MPI Benchmarks provides a set of elementary benchmarks that conform to MPI-1, MPI-2, and MPI-3 standard. You can run all of the supported benchmarks, or a subset specified in the command line using one executable file. Use command-line parameters to specify various settings, such as time measurement, message lengths, and selection of communicators.

intel-oneapi-advisor

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.0, 2021.4.0
Description:
Intel Advisor is a design and analysis tool for developing performant code. The tool supports C, C++, Fortran, SYCL, OpenMP, OpenCL code, and Python. It helps with the following: Performant CPU Code: Design your application for efficient threading, vectorization, and memory use. Efficient GPU Offload: Identify parts of the code that can be profitably offloaded. Optimize the code for compute and memory. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-ccl

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.1, 2021.5.0, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Build Dependencies:
intel-oneapi-mpi
Link Dependencies:
intel-oneapi-mpi
Description:
Intel oneAPI CCL. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-compilers

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.2, 2022.0.1, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.2
Build Dependencies:
patchelf
Description:
Intel oneAPI Compilers. Includes: icc, icpc, ifort, icx, icpx, ifx, and dpcpp. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-dal

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.3, 2021.5.1, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Build Dependencies:
intel-oneapi-tbb
Link Dependencies:
intel-oneapi-tbb
Description:
Intel Data Analytics Library (DAL) provides the right tools to build compute-intense applications that run fast on Intel architecture. It includes algorithms for analysis functions, math functions, training and library prediction functions for C++ and Java. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-dnn

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.2, 2022.0.1, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Build Dependencies:
intel-oneapi-tbb
Link Dependencies:
intel-oneapi-tbb
Description:
Intel oneAPI DNN. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-dpl

Homepage:
Spack package:
Versions:
2021.7.0, 2021.6.0, 2021.5.0, 2021.4.0
Description:
Intel oneAPI DPL. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-inspector

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.0, 2021.4.0, 2021.3.0
Description:
Intel Inspector is a dynamic memory and threading error debugger for C, C++, and Fortran applications that run on Windows and Linux operating systems. Save money: locate the root cause of memory, threading, and persistence errors before you release. Save time: simplify the diagnosis of difficult errors by breaking into the debugger just before the error occurs. Save effort: use your normal debug or production build to catch and debug errors. Check all code, including third-party libraries with unavailable sources. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-ipp

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.2, 2021.5.1, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Build Dependencies:
intel-oneapi-tbb
Link Dependencies:
intel-oneapi-tbb
Description:
Intel oneAPI IPP. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-ippcp

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.1, 2021.5.0, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Description:
Intel oneAPI IPP Crypto. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-mkl

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.2, 2022.0.1, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Build Dependencies:
intel-oneapi-tbb, mpi
Link Dependencies:
intel-oneapi-tbb, mpi
Description:
Intel oneAPI MKL. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-mpi

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.1, 2021.5.0, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Link Dependencies:
libfabric
Run Dependencies:
libfabric
Description:
Intel oneAPI MPI. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-tbb

Homepage:
Spack package:
Versions:
2021.6.0, 2021.5.1, 2021.5.0, 2021.4.0, 2021.3.0, 2021.2.0, 2021.1.1
Description:
Intel oneAPI TBB. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-vpl

Homepage:
Spack package:
Versions:
2022.1.0, 2022.0.0, 2021.6.0, 2021.2.2, 2021.1.1
Description:
The Intel oneAPI Video Processing Library (oneVPL) is the successor to Intel Media SDK. This library takes you from abstractions for integrated graphics to using oneVPL to unlock media features on a much broader range of accelerators. oneVPL provides a single, video-focused API for encoding, decoding, and video processing that works across a wide range of accelerators. The library is perfect for applications spanning broadcasting, streaming, video on demand (VOD), in-cloud gaming, and remote desktop solutions. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-oneapi-vtune

Homepage:
Spack package:
Versions:
2022.3.0, 2022.0.0, 2021.7.1, 2021.6.0
Description:
Intel VTune Profiler is a profiler to optimize application performance, system performance, and system configuration for HPC, cloud, IoT, media, storage, and more. CPU, GPU, and FPGA: Tune the entire application's performance--not just the accelerated portion. Multilingual: Profile SYCL, C, C++, C#, Fortran, OpenCL code, Python, Google Go programming language, Java, .NET, Assembly, or any combination of languages. System or Application: Get coarse-grained system data for an extended period or detailed results mapped to source code. Power: Optimize performance while avoiding power and thermal-related throttling. LICENSE INFORMATION: By downloading and using this software, you agree to the terms and conditions of the software license agreements at https://intel.ly/393CijO.

intel-parallel-studio

Homepage:
Spack package:
Versions:
professional.2020.4, professional.2020.2, professional.2020.1, professional.2020.0, professional.2019.5, professional.2019.4, professional.2019.3, professional.2019.2, professional.2019.1, professional.2019.0, professional.2018.4, professional.2018.3, professional.2018.2, professional.2018.1, professional.2018.0, professional.2017.7, professional.2017.6, professional.2017.5, professional.2017.4, professional.2017.3, professional.2017.2, professional.2017.1, professional.2017.0, professional.2016.4, professional.2016.3, professional.2016.2, professional.2016.1, professional.2016.0, professional.2015.6, professional.2015.1, composer.2020.4, composer.2020.2, composer.2020.1, composer.2020.0, composer.2019.5, composer.2019.4, composer.2019.3, composer.2019.2, composer.2019.1, composer.2019.0, composer.2018.4, composer.2018.3, composer.2018.2, composer.2018.1, composer.2018.0, composer.2017.7, composer.2017.6, composer.2017.5, composer.2017.4, composer.2017.3, composer.2017.2, composer.2017.1, composer.2017.0, composer.2016.4, composer.2016.3, composer.2016.2, composer.2015.6, composer.2015.1, cluster.2020.4, cluster.2020.2, cluster.2020.1, cluster.2020.0, cluster.2019.5, cluster.2019.4, cluster.2019.3, cluster.2019.2, cluster.2019.1, cluster.2019.0, cluster.2018.4, cluster.2018.3, cluster.2018.2, cluster.2018.1, cluster.2018.0, cluster.2017.7, cluster.2017.6, cluster.2017.5, cluster.2017.4, cluster.2017.3, cluster.2017.2, cluster.2017.1, cluster.2017.0, cluster.2016.4, cluster.2016.3, cluster.2016.2, cluster.2016.1, cluster.2016.0, cluster.2015.6, cluster.2015.1
Build Dependencies:
patchelf
Description:
Intel Parallel Studio.

intel-pin

Homepage:
Spack package:
Versions:
3.15, 3.14, 3.13, 3.11, 3.10, 3.7, 2.14
Description:
Intel Pin is a dynamic binary instrumentation framework for the IA-32, x86-64 and MIC instruction-set architectures that enables the creation of dynamic program analysis tools.

intel-tbb

Homepage:
Spack package:
Versions:
2021.3.0, 2021.2.0, 2021.1.1, 2020.3, 2020.2, 2020.1, 2020.0, 2019.9, 2019.8, 2019.7, 2019.6, 2019.5, 2019.4, 2019.3, 2019.2, 2019.1, 2019, 2018.6, 2018.5, 2018.4, 2018.3, 2018.2, 2018.1, 2018, 2017.8, 2017.7, 2017.6, 2017.5, 2017.4, 2017.3, 2017.2, 2017.1, 2017, 4.4.6, 4.4.5, 4.4.4, 4.4.3, 4.4.2, 4.4.1, 4.4
Build Dependencies:
cmake, hwloc
Link Dependencies:
hwloc
Description:
Widely used C++ template library for task parallelism. Intel Threading Building Blocks (Intel TBB) lets you easily write parallel C++ programs that take full advantage of multicore performance, that are portable and composable, and that have future-proof scalability.

intel-xed

Homepage:
Spack package:
Versions:
main, 2022.04.17, 12.0.1, 11.2.0, 10.2019.03
Build Dependencies:
python
Description:
The Intel X86 Encoder Decoder library for encoding and decoding x86 machine instructions (64- and 32-bit). Also includes libxed-ild, a lightweight library for decoding the length of an instruction.

interproscan

Homepage:
Spack package:
Versions:
5.38-76.0, 5.36-75.0, 4.8
Build Dependencies:
java, maven, perl, python, perl-cgi, perl-mailtools, perl-xml-quote, perl-xml-parser, perl-io-string, perl-io-stringy, perl-db-file
Run Dependencies:
java, perl, python, perl-cgi, perl-mailtools, perl-xml-quote, perl-xml-parser, perl-io-string, perl-io-stringy, perl-db-file
Description:
InterProScan is the software package that allows sequences (protein and nucleic) to be scanned against InterPro's signatures. Signatures are predictive models, provided by several different databases, that make up the InterPro consortium.

intltool

Homepage:
Spack package:
Versions:
0.51.0
Build Dependencies:
gnuconfig, perl-xml-parser, perl
Run Dependencies:
perl-xml-parser, perl
Description:
intltool is a set of tools to centralize translation of many different file formats using GNU gettext-compatible PO files.

ioapi

Homepage:
Spack package:
Versions:
3.2
Build Dependencies:
netcdf-c, netcdf-fortran, sed
Link Dependencies:
netcdf-c, netcdf-fortran
Description:
Models-3/EDSS Input/Output Applications Programming Interface.

ior

Homepage:
Spack package:
Versions:
develop, 3.3.0rc1, 3.3.0, 3.2.1, 3.2.0, 3.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, hdf5, parallel-netcdf
Link Dependencies:
mpi, hdf5, parallel-netcdf
Description:
The IOR software is used for benchmarking parallel file systems using POSIX, MPI-IO, or HDF5 interfaces.

iozone

Homepage:
Spack package:
Versions:
3_491, 3_465
Description:
IOzone is a filesystem benchmark tool. The benchmark generates and measures a variety of file operations. Iozone has been ported to many machines and runs under many operating systems.

ip

Homepage:
Spack package:
Versions:
4.0.0, 3.3.3
Build Dependencies:
cmake, sp
Link Dependencies:
sp
Description:
The NCEP general interpolation library (iplib) contains Fortran 90 subprograms to be used for interpolating between nearly all grids used at NCEP. This is part of the NCEPLIBS project.

ip2

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
cmake, sp
Link Dependencies:
sp
Description:
The NCEP general interpolation library 2 (ip2lib) contains Fortran 90 subprograms to be used for interpolating between nearly all grids used at NCEP. This library is deprecated; all functionality has been moved to the ip library. This is part of the NCEPLIBS project.

ipcalc

Homepage:
Spack package:
Versions:
0.2.3, 0.2.2, 0.2.0
Build Dependencies:
geoip-api-c
Link Dependencies:
geoip-api-c
Description:
This is a modern tool to assist in network address calculations for IPv4 and IPv6. It acts both as a tool to output human readable information about a network or address, as well as a tool suitable to be used by scripts or other programs.

iperf2

Homepage:
Spack package:
Versions:
2.0.12
Build Dependencies:
gnuconfig
Description:
This code is a continuation based from the no longer maintained iperf 2.0.5 code base. Iperf 2.0.5 is still widely deployed and used by many for testing networks and for qualifying networking products.

iperf3

Homepage:
Spack package:
Versions:
3.6
Build Dependencies:
gnuconfig
Description:
The iperf series of tools perform active measurements to determine the maximum achievable bandwidth on IP networks. iperf2 is a separately maintained project.

ipopt

Homepage:
Spack package:
Versions:
3.14.5, 3.14.4, 3.14.3, 3.14.2, 3.14.1, 3.14.0, 3.13.4, 3.13.3, 3.13.2, 3.13.1, 3.13.0, 3.12.13, 3.12.12, 3.12.11, 3.12.10, 3.12.9, 3.12.8, 3.12.7, 3.12.6, 3.12.5, 3.12.4, 3.12.3, 3.12.2, 3.12.1, 3.12.0
Build Dependencies:
gnuconfig, blas, lapack, pkgconfig, mumps, coinhsl, metis
Link Dependencies:
blas, lapack, mumps, coinhsl, metis
Description:
Ipopt (Interior Point OPTimizer, pronounced eye-pea-Opt) is a software package for large-scale nonlinear optimization.

iproute2

Homepage:
Spack package:
Versions:
5.11.0, 5.10.0, 5.9.0, 5.8.0, 5.7.0, 5.6.0, 5.5.0
Build Dependencies:
gnuconfig, bison, flex, libmnl
Link Dependencies:
libmnl
Description:
This is a set of utilities for Linux networking.

iptraf-ng

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.1.4
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
A console-based network monitoring utility.

iq-tree

Homepage:
Spack package:
Versions:
2.1.3, 2.0.6, 1.6.12
Build Dependencies:
cmake, boost, eigen, zlib, mpi
Link Dependencies:
boost, eigen, zlib, mpi
Description:
IQ-TREE Efficient software for phylogenomic inference

irep

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
cmake, lua-lang
Link Dependencies:
lua-lang
Description:
IREP is a tool that enables mixed-language simulation codes to use a common, Lua-based format for their input decks. Essentially, the input format is a set of tables -- Lua's one (and only?) data structure.

isaac

Homepage:
Spack package:
Versions:
develop, master, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0
Build Dependencies:
cmake
Link Dependencies:
jpeg, jansson, boost, cuda, icet, mpi
Description:
In Situ Animation of Accelerated Computations: Header-Only Library

isaac-server

Homepage:
Spack package:
Versions:
develop, master, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0
Build Dependencies:
cmake
Link Dependencies:
jpeg, jansson, boost, libwebsockets
Description:
In Situ Animation of Accelerated Computations: Server

isc-dhcp

Homepage:
Spack package:
Versions:
4.4.2, 4.4.1, 4.4.0, 4.3.6, 4.3.5
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, bind9
Description:
ISC DHCP offers a complete open source solution for implementing DHCP servers, relay agents, and clients. ISC DHCP supports both IPv4 and IPv6, and is suitable for use in high-volume and high-reliability applications.

isescan

Homepage:
Spack package:
Versions:
1.7.2.1
Run Dependencies:
python, py-numpy, py-scipy, py-biopython, py-fastcluster, py-argparse, blast-plus, fraggenescan, hmmer
Description:
A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome

isl

Homepage:
Spack package:
Versions:
0.24, 0.21, 0.20, 0.19, 0.18, 0.15, 0.14
Build Dependencies:
gnuconfig, gmp
Link Dependencies:
gmp
Description:
isl (Integer Set Library) is a thread-safe C library for manipulating sets and relations of integer points bounded by affine constraints.

iso-codes

Homepage:
Spack package:
Versions:
4.3
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, gettext, python
Description:
ISO-codes provides lists of various ISO standards

ispc

Homepage:
Spack package:
Versions:
main, 1.16.1, 1.16.0, 1.15.0, 1.14.1, 1.14.0, 1.13.0
Build Dependencies:
cmake, python, bison, flex, llvm
Link Dependencies:
ncurses, zlib, llvm
Description:
Intel Implicit SPMD Program Compiler An open-source compiler for high- performance SIMD programming on the CPU

istio

Homepage:
Spack package:
Versions:
1.6.7, 1.6.6, 1.6.5, 1.6.4
Description:
An open platform to connect, manage, and secure microservices.

itensor

Homepage:
Spack package:
Versions:
3.1.10, 3.1.9, 3.1.8, 3.1.7, 3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.1, 3.0.0, 2.1.1
Build Dependencies:
lapack, hdf5
Link Dependencies:
lapack, hdf5
Description:
ITensor -Intelligent Tensor- is a library for implementing tensor network calculations.

itk

Homepage:
Spack package:
Versions:
5.3rc02, 5.2.1, 5.2.0, 5.1.2, 5.1.1
Build Dependencies:
cmake, git, perl, eigen, expat, fftw-api, googletest, hdf5, jpeg, libpng, libtiff, zlib
Link Dependencies:
eigen, expat, fftw-api, googletest, hdf5, jpeg, libpng, libtiff, zlib
Description:
The Insight Toolkit (ITK) is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration. The Insight Toolkit (ITK) is an open-source, cross- platform toolkit for N-dimensional scientific image processing, segmentation, and registration. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. Typically the sampled representation is an image acquired from such medical instrumentation as CT or MRI scanners. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with a MRI scan in order to combine the information contained in both.

itstool

Homepage:
Spack package:
Versions:
2.0.7, 2.0.2, 2.0.1, 2.0.0, 1.2.0
Build Dependencies:
gnuconfig, libxml2, python
Link Dependencies:
python
Run Dependencies:
libxml2
Description:
ITS Tool allows you to translate your XML documents with PO files, using rules from the W3C Internationalization Tag Set (ITS) to determine what to translate and how to separate it into PO file messages.

itsx

Homepage:
Spack package:
Versions:
1.0.11
Build Dependencies:
perl, hmmer
Link Dependencies:
hmmer
Run Dependencies:
perl
Description:
Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for use in environmental sequencing

iwyu

Homepage:
Spack package:
Versions:
0.17, 0.16, 0.15, 0.14, 0.13, 0.12, 0.11
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
include-what-you-use: A tool for use with clang to analyze #includes in C and C++ source files

jackcess

Homepage:
Spack package:
Versions:
2.1.12, 1.2.14.3
Build Dependencies:
jdk
Run Dependencies:
jdk, java, commons-lang, commons-logging
Description:
Jackcess is a pure Java library for reading from and writing to MS Access databases (currently supporting versions 2000-2016).

jafka

Homepage:
Spack package:
Versions:
3.0.6, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 1.6.2
Run Dependencies:
java
Description:
Jafka is a distributed publish-subscribe messaging system.

jags

Homepage:
Spack package:
Versions:
4.3.0, 4.2.0
Build Dependencies:
gnuconfig, blas, lapack
Link Dependencies:
blas, lapack
Description:
JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS

jali

Homepage:
Spack package:
Versions:
master, 1.1.6, 1.1.5, 1.1.4, 1.1.1, 1.1.0, 1.0.5
Build Dependencies:
cmake, mpi, boost, mstk, zoltan, metis, exodusii
Link Dependencies:
mpi, boost, mstk, zoltan, metis, exodusii
Test Dependencies:
unittest-cpp
Description:
Jali is a parallel, unstructured mesh infrastructure library designed for use by multi-physics simulations.

jansi

Homepage:
Spack package:
Versions:
1.18, 1.17.1, 1.17, 1.16, 1.15
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Jansi is a small java library that allows you to use ANSI escape codes to format your console output which works even on Windows.

jansi-native

Homepage:
Spack package:
Versions:
1.8
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Jansi is a small ASl 2.0 licensed Java library that allows you to use ANSI escape sequences to format your console output which works even on windows.

jansson

Homepage:
Spack package:
Versions:
2.13.1, 2.13, 2.12, 2.11, 2.10, 2.9
Build Dependencies:
cmake
Description:
Jansson is a C library for encoding, decoding and manipulating JSON data.

jasper

Homepage:
Spack package:
Versions:
3.0.3, 2.0.32, 2.0.31, 2.0.16, 2.0.14, 1.900.1
Build Dependencies:
cmake, jpeg, gl
Link Dependencies:
jpeg, gl
Description:
Library for manipulating JPEG-2000 images

jbigkit

Homepage:
Spack package:
Versions:
2.1, 1.6
Description:
JBIG-Kit is a software implementation of the JBIG1 data compression standard.

jblob

Homepage:
Spack package:
Versions:
3.0
Run Dependencies:
java
Description:
The German Climate Computing Center (DKRZ: Deutsches Klimarechenzentrum GmbH) provides a Long Term Archiving Service for large research data sets which are relevant for climate or Earth system research.

jchronoss

Homepage:
Spack package:
Versions:
1.2, 1.1.1, 1.1, 1.0
Build Dependencies:
cmake, libxml2, libwebsockets, libev, ncurses
Link Dependencies:
libxml2, libwebsockets, libev, ncurses
Description:
JCHRONOSS aims to help HPC application testing process to scale as much as the application does.

jdk

Homepage:
Spack package:
Versions:
14_36, 12.0.2_10, 12.0.1_12, 11.0.2_9, 11.0.1_13, 10.0.2_13, 10.0.1_10, 1.8.0_241-b07, 1.8.0_231-b11, 1.8.0_212-b10, 1.8.0_202-b08, 1.8.0_141-b15, 1.8.0_131-b11
Description:
The Java Development Kit (JDK) released by Oracle Corporation in the form of a binary product aimed at Java developers. Includes a complete JRE plus tools for developing, debugging, and monitoring Java applications.

jellyfish

Homepage:
Spack package:
Versions:
2.2.7, 1.1.11
Build Dependencies:
gnuconfig, perl, python
Run Dependencies:
perl, python
Description:
JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.

jemalloc

Homepage:
Spack package:
Versions:
5.2.1, 5.2.0, 4.5.0, 4.4.0, 4.3.1, 4.2.1, 4.2.0, 4.1.0, 4.0.4
Build Dependencies:
gnuconfig
Description:
jemalloc is a general purpose malloc(3) implementation that emphasizes fragmentation avoidance and scalable concurrency support.

jetty-project

Homepage:
Spack package:
Versions:
9.4.31.v20200723, 9.4.30.v20200611
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Jetty is a lightweight highly scalable java based web server and servlet engine.

jhpcn-df

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
cmake
Link Dependencies:
zlib, lz4
Description:
Data compression library based on Jointed Hierarchical Precision Compression Number - Data Format JHPCN-DF is a novel lossy compression algorithm taylored for floating point dataset. The algorithm enhances the effect of employing standard compression algorithms like deflate because this approach makes the occurence rate of the same byte pattern in data stream higher owing to truncating some lower bits of significand.

jimtcl

Homepage:
Spack package:
Versions:
0.79, 0.78, 0.77
Build Dependencies:
gnuconfig
Description:
A small-footprint implementation of the Tcl programming language.

jline3

Homepage:
Spack package:
Versions:
3.16.0, 3.15.0, 3.14.1, 3.14.0, 3.13.3
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
JLine is a Java library for handling console input.

jmol

Homepage:
Spack package:
Versions:
14.31.0, 14.8.0
Run Dependencies:
java
Description:
Jmol: an open-source Java viewer for chemical structures in 3D with features for chemicals, crystals, materials and biomolecules.

jogl

Homepage:
Spack package:
Versions:
java-11-fixes
Build Dependencies:
ant, java, gluegen
Link Dependencies:
gl, glu, libxcursor
Run Dependencies:
java, gluegen
Description:
JOGL provides full access to the APIs in the OpenGL specification as well as nearly all vendor extensions.

jose

Homepage:
Spack package:
Versions:
10, 9, 8
Build Dependencies:
gnuconfig, pkgconfig, jansson, zlib, openssl
Link Dependencies:
jansson, zlib, openssl
Description:
This package contains a C library for performing JOSE operations.

jpegoptim

Homepage:
Spack package:
Versions:
1.4.6, 1.4.5, 1.4.4
Build Dependencies:
gnuconfig, libjpeg
Link Dependencies:
libjpeg
Description:
jpegoptim - utility to optimize/compress JPEG files

jq

Homepage:
Spack package:
Versions:
1.6, 1.5
Build Dependencies:
gnuconfig, oniguruma, bison
Link Dependencies:
oniguruma
Description:
jq is a lightweight and flexible command-line JSON processor.

json-c

Homepage:
Spack package:
Versions:
0.15, 0.14, 0.13.1, 0.12.1, 0.12, 0.11
Build Dependencies:
cmake, autoconf
Description:
A JSON implementation in C.

json-cwx

Homepage:
Spack package:
Versions:
0.12
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
JSON-C with Extensions

json-fortran

Homepage:
Spack package:
Versions:
7.1.0, 7.0.0, 6.11.0
Build Dependencies:
cmake
Description:
A Fortran 2008 JSON API

json-glib

Homepage:
Spack package:
Versions:
1.6.6, 1.5.2, 1.4.4, 1.3.2, 1.2.8
Build Dependencies:
meson, ninja, glib
Link Dependencies:
glib
Description:
JSON-GLib is a library for reading and parsing JSON using GLib and GObject data types and API.

jsoncpp

Homepage:
Spack package:
Versions:
1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.4, 1.8.3, 1.8.2, 1.8.1, 1.8.0, 1.7.7, 1.7.6, 1.7.5, 1.7.4, 1.7.3
Build Dependencies:
cmake
Test Dependencies:
python
Description:
JsonCpp is a C++ library that allows manipulating JSON values, including serialization and deserialization to and from strings. It can also preserve existing comment in unserialization/serialization steps, making it a convenient format to store user input files.

jsonnet

Homepage:
Spack package:
Versions:
master, 0.18.0, 0.17.0
Build Dependencies:
python, py-setuptools, py-pip, py-wheel
Run Dependencies:
python
Description:
A data templating language for app and tool developers based on JSON

jstorm

Homepage:
Spack package:
Versions:
2.4.0
Description:
JStorm is an enterprise fast and stable streaming process engine.

jube

Homepage:
Spack package:
Versions:
2.4.0, 2.3.0, 2.2.2, 2.2.1, 2.2.0, 2.1.4, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.1, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The Juelich benchmarking environment (JUBE) provides a script based framework to easily create benchmark sets, run those sets on different computer systems and evaluate the results.

judy

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig
Description:
Judy: General-purpose dynamic array, associative array and hash-trie.

julea

Homepage:
Spack package:
Versions:
master
Build Dependencies:
meson, ninja, pkgconfig, glib, libbson, hdf5, leveldb, lmdb, mariadb-c-client, mongo-c-driver, rocksdb, sqlite
Link Dependencies:
glib, libbson, hdf5, leveldb, lmdb, mariadb-c-client, mongo-c-driver, rocksdb, sqlite
Description:
JULEA is a flexible storage framework that allows offering arbitrary I/O interfaces to applications. To be able to rapidly prototype new approaches, it offers object, key-value and database backends. Support for popular storage technologies such as POSIX, LevelDB and MongoDB is already included.

julia

Homepage:
Spack package:
Versions:
master, 1.7.2, 1.7.1, 1.7.0, 1.6.6, 1.6.5, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6.0, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.2, 1.4.1, 1.4.0, 1.3.1, 1.2.0, 1.1.1, 1.0.0, 0.6.2, 0.5.2, 0.5.1, 0.5.0, 0.4.7, 0.4.6, 0.4.5, 0.4.3
Build Dependencies:
llvm, libuv, libblastrampoline, libgit2, libssh2, mbedtls, openlibm, patchelf, perl, libwhich, blas, curl, dsfmt, gmp, lapack, mpfr, nghttp2, openblas, p7zip, pcre2, suite-sparse, unwind, utf8proc, zlib
Link Dependencies:
llvm, libuv, libblastrampoline, libgit2, libssh2, mbedtls, openlibm, blas, curl, dsfmt, gmp, lapack, mpfr, nghttp2, openblas, p7zip, pcre2, suite-sparse, unwind, utf8proc, zlib
Description:
The Julia Language: A fresh approach to technical computing

junit4

Homepage:
Spack package:
Versions:
4.13, 4.12
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
A programmer-oriented testing framework for Java.

k8

Homepage:
Spack package:
Versions:
0.2.4
Run Dependencies:
zlib
Description:
K8 is a Javascript shell based on Google's V8 Javascript engine.

kadath

Homepage:
Spack package:
Versions:
fuka
Build Dependencies:
cmake, blas, boost, fftw-api, gsl, lapack, mpi, pgplot, scalapack
Link Dependencies:
blas, boost, fftw-api, gsl, lapack, mpi, pgplot, scalapack
Description:
KADATH SPECTRAL SOLVER. The Frankfurt University/Kadath (FUKA) Initial Data solver branch is a collection of ID solvers aimed at delivering consistent initial data (ID) solutions to the eXtended Conformal Thin- Sandwich (XCTS) formulation of Einstein's field equations for a variety of compact object configurations to include extremely compact, asymmetric, and mixed spin binaries.

kafka

Homepage:
Spack package:
Versions:
2.13-2.4.0, 2.12-2.4.0, 2.12-2.3.1, 2.12-2.3.0, 2.12-2.2.2
Run Dependencies:
java
Description:
Kafka is used for building real-time data pipelines and streaming apps. It is horizontally scalable, fault-tolerant, wicked fast, and runs in production in thousands of companies.

kahip

Homepage:
Spack package:
Versions:
develop, 3.14, 3.13, 3.12, 3.11, 2.00
Build Dependencies:
cmake, scons, argtable, mpi, metis
Link Dependencies:
argtable, mpi, metis
Description:
KaHIP - Karlsruhe High Quality Partitioning - is a family of graph partitioning programs. It includes KaFFPa (Karlsruhe Fast Flow Partitioner), which is a multilevel graph partitioning algorithm, in its variants Strong, Eco and Fast, KaFFPaE (KaFFPaEvolutionary) which is a parallel evolutionary algorithm that uses KaFFPa to provide combine and mutation operations, as well as KaBaPE which extends the evolutionary algorithm. Moreover, specialized techniques are included to partition road networks (Buffoon), to output a vertex separator from a given partition or techniques geared towards efficient partitioning of social networks.

kaiju

Homepage:
Spack package:
Versions:
1.6.2
Run Dependencies:
perl-io-compress, py-htseq
Description:
Kaiju is a program for the taxonomic classification of high-throughput sequencing reads.

kakoune

Homepage:
Spack package:
Versions:
2021.11.08
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
mawww's experiment for a better code editor.

kaks-calculator

Homepage:
Spack package:
Versions:
2.0
Description:
KaKs_Calculator adopts model selection and model averaging to calculate nonsynonymous (Ka) and synonymous (Ks) substitution rates, attempting to include as many features as needed for accurately capturing evolutionary information in protein-coding sequences.

kaldi

Homepage:
Spack package:
Versions:
master, 2021-11-16, 2019-09-29, 2019-07-29, 2018-07-11, 2015-10-07
Build Dependencies:
blas, cuda, openfst, cub
Link Dependencies:
blas, cuda, openfst, cub
Run Dependencies:
sph2pipe, sctk, speex
Description:
Kaldi is a toolkit for speech recognition written in C++ and licensed under the Apache License v2.0. Kaldi is intended for use by speech recognition researchers.

kallisto

Homepage:
Spack package:
Versions:
0.48.0, 0.46.2, 0.43.1
Build Dependencies:
cmake, zlib, hdf5, autoconf, automake, libtool, m4
Link Dependencies:
zlib, hdf5
Description:
kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.

karma

Homepage:
Spack package:
Versions:
1.7.25-common
Build Dependencies:
libx11, libxaw
Run Dependencies:
libx11, libxaw
Description:
Karma is a toolkit for interprocess communications, authentication, encryption, graphics display, user interface and manipulating the Karma network data structure. It contains KarmaLib (the structured libraries and API) and a large number of modules (applications) to perform many standard tasks.

kassiopeia

Homepage:
Spack package:
Versions:
main, 3.8.0, 3.7.7, 3.7.6, 3.7.5, 3.7.4, 3.7.3, 3.7.2, 3.7.1, 3.7.0, 3.6.1, 3.5.0, 3.4.0
Build Dependencies:
cmake, zlib, root, vtk, mpi, tbb, opencl, log4cxx, boost
Link Dependencies:
zlib, root, vtk, mpi, tbb, opencl, log4cxx, boost
Description:
Simulation of electric and magnetic fields and particle tracking.

kbd

Homepage:
Spack package:
Versions:
2.3.0, 2.2.90, 2.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libpam
Link Dependencies:
libpam
Description:
The kbd project contains tools for managing Linux console (Linux console, virtual terminals, keyboard, etc.) - mainly, what they do is loading console fonts and keyboard maps.

kbproto

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Keyboard Extension. This extension defines a protcol to provide a number of new capabilities and controls for text keyboards.

kcov

Homepage:
Spack package:
Versions:
38
Build Dependencies:
cmake, zlib, curl, elfutils
Link Dependencies:
zlib, curl, elfutils, binutils
Description:
Code coverage tool for compiled programs, Python and Bash which uses debugging information to collect and report data without special compilation options

kdiff3

Homepage:
Spack package:
Versions:
0.9.98
Build Dependencies:
qt
Link Dependencies:
qt
Description:
Compare and merge 2 or 3 files or directories.

kea

Homepage:
Spack package:
Versions:
1.6.2
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, log4cplus, boost
Link Dependencies:
log4cplus, boost
Description:
Modern, open source DHCPv4 & DHCPv6 server.

kealib

Homepage:
Spack package:
Versions:
develop, 1.4.12, 1.4.11, 1.4.10, 1.4.9, 1.4.8, 1.4.7
Build Dependencies:
cmake, hdf5
Link Dependencies:
hdf5
Description:
An HDF5 Based Raster File Format. KEALib provides an implementation of the GDAL data model. The format supports raster attribute tables, image pyramids, meta-data and in-built statistics while also handling very large files and compression throughout. Based on the HDF5 standard, it also provides a base from which other formats can be derived and is a good choice for long term data archiving. An independent software library (libkea) provides complete access to the KEA image format and a GDAL driver allowing KEA images to be used from any GDAL supported software. Development work on this project has been funded by Landcare Research.

keepalived

Homepage:
Spack package:
Versions:
2.0.19, 2.0.18, 2.0.17, 2.0.16, 2.0.15, 2.0.14, 2.0.13, 2.0.12, 2.0.11
Build Dependencies:
gnuconfig, openssl
Link Dependencies:
openssl
Description:
Keepalived implements a set of checkers to dynamically and adaptively maintain and manage loadbalanced server pool according their health

keepassxc

Homepage:
Spack package:
Versions:
master, 2.7.1, 2.7.0, 2.6.6, 2.6.4
Build Dependencies:
cmake, qt, readline, argon2, libqrencode, ruby-asciidoctor, botan
Link Dependencies:
qt, libgcrypt, zlib, libmicrohttpd, libsodium, readline, argon2, libqrencode, libxi, libxtst, botan
Description:
KeePassXC - Cross-Platform Password Manager, modern, secure, and open- source.

kentutils

Homepage:
Spack package:
Versions:
302.1
Build Dependencies:
libpng, openssl, mariadb
Link Dependencies:
libpng, openssl, mariadb
Description:
Jim Kent command line bioinformatic utilities

keyutils

Homepage:
Spack package:
Versions:
1.6.1, 1.6, 1.5.10, 1.5.9
Description:
These tools are used to control the key management system built into the Linux kernel.

kibana

Homepage:
Spack package:
Versions:
6.4.0
Run Dependencies:
java
Description:
Kibana lets you visualize your Elasticsearch data and navigate the Elastic Stack

kicad

Homepage:
Spack package:
Versions:
5.1.9, 5.1.8
Build Dependencies:
cmake, wxwidgets, python, glew, gl, glm, boost, oce, swig, curl, pkgconfig, git, ngspice, hicolor-icon-theme, adwaita-icon-theme, gsettings-desktop-schemas
Link Dependencies:
wxwidgets, glew, gl, glm, boost, oce, curl, pkgconfig, ngspice
Run Dependencies:
python, git, hicolor-icon-theme, adwaita-icon-theme, gsettings-desktop-schemas
Description:
KiCad is an open source software suite for Electronic Design Automation (EDA). The programs handle Schematic Capture, and PCB Layout with Gerber output.

kim-api

Homepage:
Spack package:
Versions:
develop, 2.2.1, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.2
Build Dependencies:
cmake
Description:
OpenKIM is an online framework for making molecular simulations reliable, reproducible, and portable. Computer implementations of inter- atomic models are archived in OpenKIM, verified for coding integrity, and tested by computing their predictions for a variety of material properties. Models conforming to the KIM application programming interface (API) work seamlessly with major simulation codes that have adopted the KIM API standard. This package provides the kim-api library and supporting utilities. It also provides a small set of example models. To obtain all models archived at https://openkim.org that are compatible with the kim-api package, install and activate the openkim- models package too.

kinesis

Homepage:
Spack package:
Versions:
2.2.10, 2.2.9, 2.2.8, 2.2.7
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
The Amazon Kinesis Client Library for Java (Amazon KCL) enables Java developers to easily consume and process data from Amazon Kinesis.

kineto

Homepage:
Spack package:
Versions:
master, 2021-05-12, 2021-03-16, 2021-02-04
Build Dependencies:
cmake, ninja, python, cuda
Link Dependencies:
cuda
Description:
A CPU+GPU Profiling library that provides access to timeline traces and hardware performance counters.

kitty

Homepage:
Spack package:
Versions:
0.12.3, 0.12.2, 0.12.1, 0.12.0, 0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.1, 0.10.0
Build Dependencies:
python, harfbuzz, libxkbcommon, zlib, libpng, gl, pkgconfig, py-setuptools, py-sphinx, freetype, fontconfig, xrandr, libxinerama, xineramaproto, libxi, libxcursor, fixesproto, dbus, xkeyboard-config
Link Dependencies:
harfbuzz, libxkbcommon, zlib, libpng, gl, freetype, fontconfig, xrandr, libxinerama, xineramaproto, libxi, libxcursor, fixesproto, dbus, xkeyboard-config
Run Dependencies:
python, gl
Description:
fast, featureful, cross-platform, GPU-based terminal emulator

kmergenie

Homepage:
Spack package:
Versions:
1.7044
Build Dependencies:
python, py-setuptools, r, zlib
Link Dependencies:
zlib
Run Dependencies:
python, py-setuptools, r
Description:
KmerGenie estimates the best k-mer length for genome de novo assembly.

kmod

Homepage:
Spack package:
Versions:
27, 26, 25, 24, 23
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, lzma
Link Dependencies:
lzma
Description:
kmod is a set of tools to handle common tasks with Linux kernel modules like insert, remove, list, check properties, resolve dependencies and aliases.

knem

Homepage:
Spack package:
Versions:
master, 1.1.4, 1.1.3
Build Dependencies:
gnuconfig, hwloc, pkgconfig, autoconf, automake, m4
Link Dependencies:
hwloc
Description:
KNEM is a Linux kernel module enabling high-performance intra-node MPI communication for large messages.

kokkos

Homepage:
Spack package:
Versions:
develop, master, 3.6.00, 3.5.00, 3.4.01, 3.4.00, 3.3.01, 3.3.00, 3.2.01, 3.2.00, 3.1.01, 3.1.00, 3.0.00
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, hpx, hwloc, numactl, memkind, kokkos-nvcc-wrapper
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hpx, hwloc, numactl, memkind, kokkos-nvcc-wrapper
Description:
Kokkos implements a programming model in C++ for writing performance portable applications targeting all major HPC platforms.

kokkos-kernels

Homepage:
Spack package:
Versions:
develop, master, 3.6.00, 3.5.00, 3.4.01, 3.4.00, 3.3.01, 3.3.00, 3.2.01, 3.2.00, 3.1.00, 3.0.00
Build Dependencies:
cuda, cmake, kokkos, blas, lapack, mkl, superlu, cblas, clapack
Link Dependencies:
cuda, kokkos, blas, lapack, mkl, superlu, cblas, clapack
Description:
Kokkos Kernels provides math kernels, often BLAS or LAPACK for small matrices, that can be used in larger Kokkos parallel routines

kokkos-kernels-legacy

Homepage:
Spack package:
Versions:
2.7.00, 2.6.00, 2.5.00
Build Dependencies:
kokkos-legacy
Link Dependencies:
kokkos-legacy
Description:
Kokkos C++ Performance Portability Programming EcoSystem: Math Kernels - Provides BLAS, Sparse BLAS and Graph Kernels.

kokkos-legacy

Homepage:
Spack package:
Versions:
2.9.00, 2.8.00, 2.7.24, 2.7.00, 2.6.00, 2.5.00, 2.04.11, 2.04.04, 2.04.00, 2.03.13, 2.03.05, 2.03.00, 2.02.15, 2.02.07
Build Dependencies:
hwloc, qthreads, cuda, cmake
Link Dependencies:
hwloc, qthreads, cuda
Description:
Kokkos implements a programming model in C++ for writing performance portable applications targeting all major HPC platforms.

kokkos-nvcc-wrapper

Homepage:
Spack package:
Versions:
develop, master, 3.2.00, 3.1.01, 3.1.00, 3.0.00
Build Dependencies:
cuda, mpi, cmake
Link Dependencies:
cuda, mpi
Description:
The NVCC wrapper provides a wrapper around NVCC to make it a 'full' C++ compiler that accepts all flags

kraken

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
perl, jellyfish
Link Dependencies:
jellyfish
Run Dependencies:
perl
Description:
Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.

kraken2

Homepage:
Spack package:
Versions:
2.1.1, 2.0.8-beta, 2.0.7-beta, 2.0.6-beta
Build Dependencies:
perl
Run Dependencies:
perl, rsync, wget
Description:
Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.

krb5

Homepage:
Spack package:
Versions:
1.19.3, 1.19.2, 1.18.2, 1.18.1, 1.18, 1.17.1, 1.17, 1.16.3, 1.16.2, 1.16.1
Build Dependencies:
gnuconfig, bison, openssl, gettext
Link Dependencies:
openssl, gettext
Description:
Network authentication protocol

krims

Homepage:
Spack package:
Versions:
develop, 0.2.1
Build Dependencies:
cmake
Description:
The bucket of Krimskrams every C or C++ project needs

kripke

Homepage:
Spack package:
Versions:
1.2.4, 1.2.3, 1.2.2, 1.2.1, 1.2.0
Build Dependencies:
cmake, mpi, caliper
Link Dependencies:
mpi, caliper
Description:
Kripke is a simple, scalable, 3D Sn deterministic particle transport proxy/mini app.

kubernetes

Homepage:
Spack package:
Versions:
1.18.1, 1.18.0, 1.17.4
Build Dependencies:
go
Description:
Kubernetes is an open source system for managing containerized applications across multiple hosts. It provides basic mechanisms for deployment, maintenance, and scaling of applications.

kvasir-mpl

Homepage:
Spack package:
Versions:
develop
Description:
Kvasir metaprogramming library

kvtree

Homepage:
Spack package:
Versions:
main, 1.2.0, 1.1.1, 1.1.0, 1.0.3, 1.0.2
Build Dependencies:
cmake, mpi
Link Dependencies:
zlib, mpi
Description:
KVTree provides a fully extensible C datastructure modeled after perl hashes.

kylin

Homepage:
Spack package:
Versions:
3.1.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Kylin is an open source, distributed Analytical Data Warehouse for Big Data; it was designed to provide OLAP (Online Analytical Processing) capability in the big data era. By renovating the multi- dimensional cube and precalculation technology on Hadoop and Spark, Kylin is able to achieve near constant query speed regardless of the ever-growing data volume. Reducing query latency from minutes to sub- second, Kylin brings online analytics back to big data.

ladot

Homepage:
Spack package:
Versions:
1.2
Run Dependencies:
perl, graphviz
Test Dependencies:
perl, graphviz, texlive
Description:
Ladot is a script that makes using LaTeX in graphs generated by dot (graphviz) relatively easy.

laghos

Homepage:
Spack package:
Versions:
develop, 3.1, 3.0, 2.0, 1.1, 1.0
Build Dependencies:
mfem
Link Dependencies:
mfem
Description:
Laghos (LAGrangian High-Order Solver) is a CEED miniapp that solves the time-dependent Euler equations of compressible gas dynamics in a moving Lagrangian frame using unstructured high-order finite element spatial discretization and explicit high-order time-stepping.

lame

Homepage:
Spack package:
Versions:
3.100
Build Dependencies:
gnuconfig, nasm
Description:
LAME is a high quality MPEG Audio Layer III (MP3) encoder licensed under the LGPL.

lammps

Homepage:
Spack package:
Versions:
master, 20220107, 20211214, 20211027, 20210929.2, 20210929.1, 20210929, 20210920, 20210831, 20210730, 20210728, 20210702, 20210514, 20210408, 20210310, 20201029, 20200721, 20200630, 20200505, 20200303, 20200227, 20200218, 20200204, 20200124, 20200109, 20191120, 20191030, 20190919, 20190807, 20190605, 20181212, 20181207, 20181127, 20181115, 20181109, 20181024, 20181010, 20180918, 20180905, 20180831, 20180822, 20180629, 20180316, 20180222, 20170922, 20170901
Build Dependencies:
cuda, cmake, mpi, fftw-api, voropp, netcdf-c, blas, lapack, opencl, latte, python, hdf5, jpeg, kim-api, libpng, ffmpeg, kokkos, adios2, plumed, eigen
Link Dependencies:
cuda, mpi, fftw-api, voropp, netcdf-c, blas, lapack, opencl, latte, python, hdf5, jpeg, kim-api, libpng, ffmpeg, kokkos, adios2, plumed, eigen
Description:
LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel Simulator. This package uses patch releases, not stable release. See https://github.com/spack/spack/pull/5342 for a detailed discussion.

landsfcutil

Homepage:
Spack package:
Versions:
2.4.1
Build Dependencies:
cmake
Description:
Utility routines useful for initializing land-surface states in NCEP models. This is part of NOAA's NCEPLIBS project.

lanl-cmake-modules

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
CMake modules for projects that have not yet adopted modern CMake.

lapackpp

Homepage:
Spack package:
Versions:
master, 2021.04.00, 2020.10.02, 2020.10.01, 2020.10.00
Build Dependencies:
cmake, blaspp, blas, lapack
Link Dependencies:
blaspp, blas, lapack
Description:
LAPACK++: C++ API for the LAPACK Linear Algebra Package. Developed by the Innovative Computing Laboratory at the University of Tennessee, Knoxville.

last

Homepage:
Spack package:
Versions:
1282, 869
Description:
LAST finds similar regions between sequences, and aligns them. It is designed for comparing large datasets to each other (e.g. vertebrate genomes and/or large numbers of DNA reads).

lastz

Homepage:
Spack package:
Versions:
1.04.15, 1.04.03, 1.04.00
Description:
LASTZ is a program for aligning DNA sequences, a pairwise aligner.

laszip

Homepage:
Spack package:
Versions:
3.4.1
Build Dependencies:
cmake
Description:
Free and lossless LiDAR compression

latex2html

Homepage:
Spack package:
Versions:
master, 2021, 2017
Build Dependencies:
gnuconfig, ghostscript, perl, texlive, netpbm, poppler
Run Dependencies:
ghostscript, perl, texlive, netpbm, poppler
Description:
LaTeX2HTML is a utility that converts LaTeX documents to web pages in HTML.

latte

Homepage:
Spack package:
Versions:
master, 1.2.2, 1.2.1, 1.0.1
Build Dependencies:
cmake, blas, lapack, mpi, qmd-progress
Link Dependencies:
blas, lapack, mpi, qmd-progress
Description:
Open source density functional tight binding molecular dynamics.

launchmon

Homepage:
Spack package:
Versions:
master, 1.0.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, libgcrypt, libgpg-error, boost, spectrum-mpi
Link Dependencies:
libgcrypt, libgpg-error, elf, boost, spectrum-mpi
Description:
Software infrastructure that enables HPC run-time tools to co-locate tool daemons with a parallel job.

lazyten

Homepage:
Spack package:
Versions:
develop, 0.4.1
Build Dependencies:
cmake, krims, blas, lapack, armadillo, arpack-ng
Link Dependencies:
krims, blas, lapack, armadillo, arpack-ng
Description:
Lightweight linear algebra library based on lazy matrices

lbann

Homepage:
Spack package:
Versions:
develop, 0.102, 0.101, 0.100, 0.99, 0.98.1, 0.98, 0.97.1, 0.97, 0.96, 0.95, 0.94, 0.93, 0.92, 0.91
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, hydrogen, elemental, aluminum, dihydrogen, nccl, cudnn, cub, hipcub, mpi, hwloc, half, fftw, opencv, cnpy, conduit, python, py-setuptools, py-protobuf, protobuf, cereal, catch2, clara, llvm-openmp, onednn, onnx, nvshmem, zstr, ninja
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hydrogen, elemental, aluminum, dihydrogen, nccl, cudnn, cub, hipcub, mpi, hwloc, half, fftw, opencv, cnpy, conduit, protobuf, cereal, clara, llvm-openmp, onednn, onnx, nvshmem, zstr
Run Dependencies:
python, py-argparse, py-protobuf
Test Dependencies:
catch2
Description:
LBANN: Livermore Big Artificial Neural Network Toolkit. A distributed memory, HPC-optimized, model and data parallel training toolkit for deep neural networks.

lbxproxy

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxext, liblbxutil, libx11, libice, xtrans, xproxymanagementprotocol, bigreqsproto, pkgconfig, util-macros
Link Dependencies:
libxext, liblbxutil, libx11, libice, xtrans, xproxymanagementprotocol, bigreqsproto
Description:
lbxproxy accepts client connections, multiplexes them over a single connection to the X server, and performs various optimizations on the X protocol to make it faster over low bandwidth and/or high latency connections. Note that the X server source from X.Org no longer supports the LBX extension, so this program is only useful in connecting to older X servers.

lbzip2

Homepage:
Spack package:
Versions:
2.5
Build Dependencies:
gnuconfig
Description:
Multi-threaded compression utility with support for bzip2 compressed file format

lcals

Homepage:
Spack package:
Versions:
1.0.2
Description:
LCALS ("Livermore Compiler Analysis Loop Suite") is a collection of loop kernels based, in part, on historical "Livermore Loops" benchmarks (See the 1986 technical report: "The Livermore Fortran Kernels: A Computer Test of the Numerical Performance Range", by Frank H. McMahon, UCRL-53745.). The suite contains facilities to generate timing statistics and reports.

lcgenv

Homepage:
Spack package:
Versions:
1.3.19
Description:
This package provides environment for packages in SFT LCG releases.

lcio

Homepage:
Spack package:
Versions:
master, 2.17, 2.16.1, 2.16, 2.15.4, 2.15.3, 2.15.2, 2.15.1, 2.15, 2.14.2, 2.14.1, 2.14, 2.13.3, 2.13.2, 2.13.1
Build Dependencies:
cmake, sio, root, openjdk, ncurses, delphes, readline
Link Dependencies:
sio, root, openjdk, ncurses, delphes, readline
Description:
HEP Library for Linear Collider Input/Output

lcms

Homepage:
Spack package:
Versions:
2.13.1, 2.9, 2.8, 2.6
Build Dependencies:
gnuconfig, jpeg, libtiff, zlib
Link Dependencies:
jpeg, libtiff, zlib
Description:
Little cms is a color management library. Implements fast transforms between ICC profiles. It is focused on speed, and is portable across several platforms (MIT license).

lcov

Homepage:
Spack package:
Versions:
1.15, 1.14
Description:
LCOV is a graphical front-end for GCC's coverage testing tool gcov. It collects gcov data for multiple source files and creates HTML pages containing the source code annotated with coverage information. It also adds overview pages for easy navigation within the file structure. LCOV supports statement, function and branch coverage measurement.

ldak

Homepage:
Spack package:
Versions:
5.1
Build Dependencies:
zlib, blas, lapack, mkl
Link Dependencies:
zlib, blas, lapack, mkl
Description:
LDAK is a software package for analyzing GWAS data

ldc

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
cmake, llvm, zlib, libconfig, curl, libedit, binutils, ldc-bootstrap
Link Dependencies:
llvm, zlib, libconfig, curl, libedit, binutils, ldc-bootstrap
Run Dependencies:
binutils
Description:
The LDC project aims to provide a portable D programming language compiler with modern optimization and code generation capabilities. LDC is fully Open Source; the parts of the code not taken/adapted from other projects are BSD-licensed (see the LICENSE file for details). Consult the D wiki for further information: https://wiki.dlang.org/LDC

ldc-bootstrap

Homepage:
Spack package:
Versions:
0.17.4
Build Dependencies:
cmake, llvm, zlib, libconfig, curl, libedit, binutils
Link Dependencies:
llvm, zlib, libconfig, curl, libedit, binutils
Description:
The LDC project aims to provide a portable D programming language compiler with modern optimization and code generation capabilities. LDC is fully Open Source; the parts of the code not taken/adapted from other projects are BSD-licensed (see the LICENSE file for details). Consult the D wiki for further information: https://wiki.dlang.org/LDC This old version of the compiler is needed to bootstrap newer ones.

legion

Homepage:
Spack package:
Versions:
master, stable, 21.03.0, cr
Build Dependencies:
cmake, mpi, ucx, cuda, hdf5, hwloc, kokkos, python, papi, zlib
Link Dependencies:
mpi, ucx, cuda, hdf5, hwloc, kokkos, python, papi, zlib
Description:
Legion is a data-centric parallel programming system for writing portable high performance programs targeted at distributed heterogeneous architectures. Legion presents abstractions which allow programmers to describe properties of program data (e.g. independence, locality). By making the Legion programming system aware of the structure of program data, it can automate many of the tedious tasks programmers currently face, including correctly extracting task- and data-level parallelism and moving data around complex memory hierarchies. A novel mapping interface provides explicit programmer controlled placement of data in the memory hierarchy and assignment of tasks to processors in a way that is orthogonal to correctness, thereby enabling easy porting and tuning of Legion applications to new architectures.

lemon

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
cmake
Description:
LEMON stands for Library for Efficient Modeling and Optimization in Networks. It is a C++ template library providing efficient implementations of common data structures and algorithms with focus on combinatorial optimization tasks connected mainly with graphs and networks.

leptonica

Homepage:
Spack package:
Versions:
1.81.0, 1.80.0, 1.79.0, 1.78.0
Build Dependencies:
cmake, giflib, jpeg, libpng, libtiff, zlib, libwebp, openjpeg
Link Dependencies:
giflib, jpeg, libpng, libtiff, zlib, libwebp, openjpeg
Description:
Leptonica is an open source library containing software that is broadly useful for image processing and image analysis applications.

lerc

Homepage:
Spack package:
Versions:
3.0
Build Dependencies:
cmake
Description:
Limited Error Raster Compression. LERC is an open-source image or raster format which supports rapid encoding and decoding for any pixel type (not just RGB or Byte). Users set the maximum compression error per pixel while encoding, so the precision of the original input image is preserved (within user defined error bounds).

less

Homepage:
Spack package:
Versions:
590, 551, 530
Build Dependencies:
gnuconfig
Description:
The less utility is a text file browser that resembles more, but has more capabilities. Less allows you to move backwards in the file aswell as forwards.

lesstif

Homepage:
Spack package:
Versions:
0.95.2
Build Dependencies:
gnuconfig, libice, libsm, libxt, libxext
Link Dependencies:
libice, libsm, libxt, libxext
Description:
LessTif is the Hungry Programmers' version of OSF/Motif.

leveldb

Homepage:
Spack package:
Versions:
master, 1.23, 1.22, 1.20, 1.18
Build Dependencies:
cmake, snappy
Link Dependencies:
snappy
Description:
LevelDB is a fast key-value storage library written at Google that provides an ordered mapping from string keys to string values.

lftp

Homepage:
Spack package:
Versions:
4.8.1, 4.7.7, 4.6.4
Build Dependencies:
gnuconfig, expat, iconv, ncurses, openssl, readline, zlib
Link Dependencies:
expat, iconv, ncurses, openssl, readline, zlib
Description:
LFTP is a sophisticated file transfer program supporting a number of network protocols (ftp, http, sftp, fish, torrent).

lhapdf

Homepage:
Spack package:
Versions:
6.4.0, 6.3.0, 6.2.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, python, py-cython, py-setuptools
Run Dependencies:
python
Description:
LHAPDF is a general purpose C++ interpolator, used for evaluating PDFs from discretised data files.

lhapdf5

Homepage:
Spack package:
Versions:
5.9.1, 5.9.0, 5.8.9, 5.8.8, 5.8.7, 5.8.6, 5.8.5, 5.8.4, 5.8.3, 5.8.2, 5.8.1, 5.8.0, 5.7.1
Build Dependencies:
gnuconfig, python
Link Dependencies:
python
Description:
LHAPDF is a general purpose Fortran 77/90 interpolator, used for evaluating PDFs from discretised data files.

lhapdfsets

Homepage:
Spack package:
Versions:
6.3.0
Build Dependencies:
lhapdf
Description:
A set of disretised data files of parton density functions , to be used with the LHAPDF library

libabigail

Homepage:
Spack package:
Versions:
master, 2.0, 1.8
Build Dependencies:
gnuconfig, elfutils, libxml2, autoconf, automake, libtool, python, pkgconfig, doxygen, py-sphinx
Link Dependencies:
elfutils, libxml2, python
Description:
The ABI Generic Analysis and Instrumentation Library

libaec

Homepage:
Spack package:
Versions:
1.0.6, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
cmake
Description:
Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library.

libaio

Homepage:
Spack package:
Versions:
0.3.110
Description:
Linux native Asynchronous I/O interface library. AIO enables even a single application thread to overlap I/O operations with other processing, by providing an interface for submitting one or more I/O requests in one system call (io_submit()) without waiting for completion, and a separate interface (io_getevents()) to reap completed I/O operations associated with a given completion group.

libao

Homepage:
Spack package:
Versions:
1.2.2, 1.2.0, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, perl
Link Dependencies:
perl
Description:
A Cross-platform Audio Library.

libapplewm

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, applewmproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, applewmproto
Description:
AppleWM is a simple library designed to interface with the Apple-WM extension. This extension allows X window managers to better interact with the Mac OS X Aqua user interface when running X11 in a rootless mode.

libapreq2

Homepage:
Spack package:
Versions:
2.13, 2.12, 2.08
Build Dependencies:
gnuconfig, apr, apr-util, httpd, perl
Link Dependencies:
apr, apr-util, httpd
Description:
httpd-apreq is subproject of the Apache HTTP Server Project whose committers develop and maintain the libapreq C library and its language bindings for Perl (contributions for additional language bindings are most welcome).

libarchive

Homepage:
Spack package:
Versions:
3.5.2, 3.5.1, 3.4.1, 3.3.2, 3.2.1, 3.1.2, 3.1.1, 3.1.0
Build Dependencies:
gnuconfig, bzip2, lz4, lzo, xz, zlib, zstd, nettle, openssl, mbedtls, libxml2, expat, libiconv
Link Dependencies:
bzip2, lz4, lzo, xz, zlib, zstd, nettle, openssl, mbedtls, libxml2, expat, libiconv
Description:
libarchive: C library and command-line tools for reading and writing tar, cpio, zip, ISO, and other archive formats.

libasr

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3
Build Dependencies:
gnuconfig
Description:
libasr is a free, simple and portable asynchronous resolver library.

libassuan

Homepage:
Spack package:
Versions:
2.5.5, 2.5.4, 2.5.3, 2.4.5, 2.4.3
Build Dependencies:
gnuconfig, libgpg-error
Link Dependencies:
libgpg-error
Description:
Libassuan is a small library implementing the so-called Assuan protocol.

libatasmart

Homepage:
Spack package:
Versions:
0.19, 0.18, 0.17
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
A small and lightweight parser library for ATA S.M.A.R.T. hard disk health monitoring.

libatomic-ops

Homepage:
Spack package:
Versions:
7.6.12, 7.6.6, 7.4.4
Build Dependencies:
gnuconfig
Description:
This package provides semi-portable access to hardware-provided atomic memory update operations on a number architectures.

libbacktrace

Homepage:
Spack package:
Versions:
master, 2020-02-19
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
A C library that may be linked into a C/C++ program to produce symbolic backtraces.

libbeagle

Homepage:
Spack package:
Versions:
3.1.2, 2.1.2
Build Dependencies:
cuda, gnuconfig, autoconf, automake, libtool, m4, subversion, pkgconfig, java, opencl
Link Dependencies:
cuda, opencl
Description:
Beagle performs genotype calling, genotype phasing, imputation of ungenotyped markers, and identity-by-descent segment detection.

libbeato

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig
Description:
libbeato is a C library containing routines for various uses in Genomics, and includes a copy of the freeware portion of the C library from UCSC's Genome Browser Group.

libbinio

Homepage:
Spack package:
Versions:
1.5, 1.4
Build Dependencies:
gnuconfig
Description:
Platform-independent way to access binary data streams in C++.

libblastrampoline

Homepage:
Spack package:
Versions:
5.0.2, 5.0.1, 5.0.0, 4.1.0, 4.0.0, 3.1.0, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.2.0
Description:
Using PLT trampolines to provide a BLAS and LAPACK demuxing library.

libbsd

Homepage:
Spack package:
Versions:
0.11.5, 0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.0, 0.9.1, 0.9.0, 0.8.7, 0.8.6
Build Dependencies:
gnuconfig, libmd
Link Dependencies:
libmd
Description:
This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project.

libbson

Homepage:
Spack package:
Versions:
1.21.0, 1.17.6, 1.17.5, 1.17.0, 1.16.2, 1.9.5, 1.9.4, 1.9.3, 1.9.1, 1.8.1, 1.8.0, 1.7.0, 1.6.3, 1.6.2, 1.6.1
Build Dependencies:
cmake, autoconf, automake, libtool, m4
Description:
libbson is a library providing useful routines related to building, parsing, and iterating BSON documents.

libbytesize

Homepage:
Spack package:
Versions:
2.4, 2.3, 2.2
Build Dependencies:
gnuconfig, python, pcre2, gmp, mpfr
Link Dependencies:
pcre2, gmp, mpfr
Run Dependencies:
python
Description:
The goal of this project is to provide a tiny library that would facilitate the common operations with sizes in bytes.

libc

Homepage:
Spack package:
Versions:
1.0
Description:
Dummy package to provide interfaces available in libc.

libcanberra

Homepage:
Spack package:
Versions:
0.30
Build Dependencies:
gnuconfig, libxrender, libxext, libx11, libxinerama, libxrandr, libxcursor, libxcomposite, libxdamage, libxfixes, libxcb, libxau, gtkplus, libvorbis, libtool, pkgconfig
Link Dependencies:
libxrender, libxext, libx11, libxinerama, libxrandr, libxcursor, libxcomposite, libxdamage, libxfixes, libxcb, libxau, gtkplus, libvorbis
Description:
libcanberra is an implementation of the XDG Sound Theme and Name Specifications, for generating event sounds on free desktops, such as GNOME.

libcap

Homepage:
Spack package:
Versions:
2.64, 2.25
Description:
Libcap implements the user-space interfaces to the POSIX 1003.1e capabilities available in Linux kernels. These capabilities are a partitioning of the all powerful root privilege into a set of distinct privileges.

libcap-ng

Homepage:
Spack package:
Versions:
0.8, 0.7.11, 0.7.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, attr, swig, python
Link Dependencies:
python
Run Dependencies:
python
Description:
Libcap-ng is a library that makes using posix capabilities easier

libcatalyst

Homepage:
Spack package:
Versions:
8456ccd6015142b5a7705f79471361d4f5644fa7
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Catalyst is an API specification developed for simulations (and other scientific data producers) to analyze and visualize data in situ.

libceed

Homepage:
Spack package:
Versions:
develop, 0.10.1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.2, 0.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hipblas, occa, libxsmm, magma
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hipblas, occa, libxsmm, magma
Description:
The CEED API Library: Code for Efficient Extensible Discretizations.

libcerf

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
gnuconfig
Description:
A self-contained C library providing complex error functions, based on Faddeeva's plasma dispersion function w(z). Also provides Dawson's integral and Voigt's convolution of a Gaussian and a Lorentzian

libcgroup

Homepage:
Spack package:
Versions:
0.41, 0.37, 0.36
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, bison, flex, linux-pam
Link Dependencies:
linux-pam
Description:
Library of control groups.

libcint

Homepage:
Spack package:
Versions:
3.0.13, 3.0.12, 3.0.11, 3.0.10, 3.0.8, 3.0.7, 3.0.6, 3.0.5, 3.0.4
Build Dependencies:
cmake, blas, python, py-numpy
Link Dependencies:
blas
Test Dependencies:
python, py-numpy
Description:
Library for analytical Gaussian integrals for quantum chemistry.

libcircle

Homepage:
Spack package:
Versions:
master, 0.3.0, 0.2.1-rc.1
Build Dependencies:
gnuconfig, mpi, pkgconfig, autoconf, automake, libtool
Link Dependencies:
mpi, libpciaccess
Description:
libcircle provides an efficient distributed queue on a cluster, using self-stabilizing work stealing.

libconfig

Homepage:
Spack package:
Versions:
1.7.2, 1.7.1, 1.5
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, texinfo
Description:
C/C++ Configuration File Library

libconfuse

Homepage:
Spack package:
Versions:
3.2.2, 3.2.1
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, gettext, flex
Description:
Small configuration file parser library for C.

libcroco

Homepage:
Spack package:
Versions:
0.6.13, 0.6.12
Build Dependencies:
gnuconfig, glib, libxml2, gtk-doc, pkgconfig
Link Dependencies:
glib, libxml2
Description:
Libcroco is a standalone css2 parsing and manipulation library.

libctl

Homepage:
Spack package:
Versions:
4.2.0, 3.2.2
Build Dependencies:
gnuconfig, guile
Link Dependencies:
guile
Description:
libctl is a free Guile-based library implementing flexible control files for scientific simulations.

libcudf

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
cmake, cuda, boost, arrow, librmm, dlpack
Link Dependencies:
cuda, boost, arrow, librmm, dlpack
Description:
Built based on the Apache Arrow columnar memory format, cuDF is a GPU DataFrame library for loading, joining, aggregating, filtering, and otherwise manipulating data.

libcuml

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
cmake, zlib, libcudf, cuda, blas, nccl, treelite, googletest, libcumlprims, mpi, ucx
Link Dependencies:
zlib, libcudf, cuda, blas, nccl, treelite, googletest, libcumlprims, mpi, ucx
Description:
cuML is a suite of libraries that implement machine learning algorithms and mathematical primitives functions that share compatible APIs with other RAPIDS projects.

libcumlprims

Homepage:
Spack package:
Versions:
0.15.0-cuda11.0_gdbd0d39_0, 0.15.0-cuda10.2_gdbd0d39_0, 0.15.0-cuda10.1_gdbd0d39_0
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
libcuMLPrims library

libcxxwrap-julia

Homepage:
Spack package:
Versions:
main, 0.8.3, 0.8.2
Build Dependencies:
cmake, julia
Link Dependencies:
julia
Description:
This is the C++ library component of the CxxWrap.jl package, distributed as a regular CMake library for use in other C++ projects.

libcyaml

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
libyaml
Link Dependencies:
libyaml
Description:
LibCYAML is a C library for reading and writing structured YAML documents. It is written in ISO C11 and licensed under the ISC licence.

libdaemon

Homepage:
Spack package:
Versions:
0.14, 0.13, 0.12
Build Dependencies:
gnuconfig
Description:
libdaemon is a lightweight C library which eases the writing of UNIX daemons.

libdap4

Homepage:
Spack package:
Versions:
3.20.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, bison, flex, curl, libxml2, uuid
Link Dependencies:
flex, curl, libxml2, uuid
Description:
libdap4 is is a c++ library to serve as a client for the OPeNDAP framework that simplifies all aspects of scientific data networking and provides software which makes local data accessible to remote locations regardless of local storage format.

libdatrie

Homepage:
Spack package:
Versions:
0.2.12, 0.2.11
Build Dependencies:
gnuconfig, doxygen
Description:
datrie is an implementation of double-array structure for representing trie.

libdc1394

Homepage:
Spack package:
Versions:
2.2.6
Build Dependencies:
gnuconfig, pkgconfig, libusb, libraw1394
Link Dependencies:
libusb, libraw1394
Description:
Library providing an API for IEEE 1394 cameras.

libdeflate

Homepage:
Spack package:
Versions:
1.10, 1.7
Build Dependencies:
zlib, gzip
Link Dependencies:
zlib, gzip
Description:
Heavily optimized library for DEFLATE/zlib/gzip compression and decompression

libdivsufsort

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
cmake
Description:
libdivsufsort is a software library that implements a lightweight suffix array construction algorithm.

libdmx

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, dmxproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, dmxproto
Description:
libdmx - X Window System DMX (Distributed Multihead X) extension library.

libdrm

Homepage:
Spack package:
Versions:
2.4.110, 2.4.109, 2.4.108, 2.4.107, 2.4.100, 2.4.81, 2.4.75, 2.4.70, 2.4.59, 2.4.33
Build Dependencies:
pkgconfig, libpciaccess, libpthread-stubs, meson, py-docutils, docbook-xml, docbook-xsl, libxslt
Link Dependencies:
libpciaccess, libpthread-stubs
Description:
A userspace library for accessing the DRM, direct rendering manager, on Linux, BSD and other systems supporting the ioctl interface.

libdwarf

Homepage:
Spack package:
Versions:
20180129, 20160507, 20130729, 20130207, 20130126
Link Dependencies:
elfutils, elf, zlib
Description:
The DWARF Debugging Information Format is of interest to programmers working on compilers and debuggers (and any one interested in reading or writing DWARF information). It was developed by a committee (known as the PLSIG at the time) starting around 1991. Starting around 1991 SGI developed the libdwarf and dwarfdump tools for internal use and as part of SGI IRIX developer tools. Since that time dwarfdump and libdwarf have been shipped (as an executable and archive respectively, not source) with every release of the SGI MIPS/IRIX C compiler.

libeatmydata

Homepage:
Spack package:
Versions:
105
Build Dependencies:
gnuconfig
Test Dependencies:
strace
Description:
libeatmydata is a small LD_PRELOAD library designed to (transparently) disable fsync (and friends, like open(O_SYNC)). This has two side- effects: making software that writes data safely to disk a lot quicker and making this software no longer crash safe.

libecpint

Homepage:
Spack package:
Versions:
master, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
cmake, pugixml, googletest
Link Dependencies:
pugixml, googletest
Description:
A C++ library for the efficient evaluation of integrals over effective core potentials.

libedit

Homepage:
Spack package:
Versions:
3.1-20210216, 3.1-20191231, 3.1-20170329, 3.1-20160903, 3.1-20150325
Build Dependencies:
gnuconfig, pkgconfig, ncurses
Link Dependencies:
ncurses
Description:
An autotools compatible port of the NetBSD editline library

libefence

Homepage:
Spack package:
Versions:
2.2.6
Description:
Electric Fence (or eFence) is a memory debugger written by Bruce Perens. It consists of a library which programmers can link into their code to override the C standard library memory management functions. eFence triggers a program crash when the memory error occurs, so a debugger can be used to inspect the code that caused the error.

libelf

Homepage:
Spack package:
Versions:
0.8.13
Build Dependencies:
gnuconfig
Description:
libelf lets you read, modify or create ELF object files in an architecture-independent way. The library takes care of size and endian issues, e.g. you can process a file for SPARC processors on an Intel- based system. Note: libelf is no longer maintained and packages that depend on libelf should migrate to elfutils.

libemos

Homepage:
Spack package:
Versions:
4.5.1, 4.5.0, 4.4.9, 4.4.7, 4.4.2
Build Dependencies:
cmake, eccodes, grib-api, fftw, pkgconfig
Link Dependencies:
eccodes, grib-api, fftw
Description:
The Interpolation library (EMOSLIB) includes Interpolation software and BUFR & CREX encoding/decoding routines.

libepoxy

Homepage:
Spack package:
Versions:
1.4.3
Build Dependencies:
gnuconfig, pkgconfig, gl, libx11
Link Dependencies:
gl, libx11
Description:
Epoxy is a library for handling OpenGL function pointer management for you.

libestr

Homepage:
Spack package:
Versions:
0.1.11, 0.1.10, 0.1.9
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
C library for string handling (and a bit more).

libev

Homepage:
Spack package:
Versions:
develop, 4.24
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
A full-featured and high-performance event loop that is loosely modelled after libevent, but without its limitations and bugs.

libevdev

Homepage:
Spack package:
Versions:
1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libevdev is a wrapper library for evdev devices. it moves the common tasks when dealing with evdev devices into a library and provides a library interface to the callers, thus avoiding erroneous ioctls, etc.

libevent

Homepage:
Spack package:
Versions:
2.1.12, 2.1.11, 2.1.10, 2.1.8, 2.0.22, 2.0.21, 2.0.20, 2.0.19, 2.0.18, 2.0.17, 2.0.16, 2.0.15, 2.0.14, 2.0.13, 2.0.12
Build Dependencies:
gnuconfig, openssl
Link Dependencies:
openssl
Description:
The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.

libevpath

Homepage:
Spack package:
Versions:
develop, 4.4.0, 4.2.4, 4.2.1, 4.1.2, 4.1.1
Build Dependencies:
cmake, gtkorvo-enet, libffs
Link Dependencies:
gtkorvo-enet, libffs
Description:
EVpath is an event transport middleware layer designed to allow for the easy implementation of overlay networks, with active data processing, routing and management at all points in the overlay. EVPath is designed for high performance systems.

libexif

Homepage:
Spack package:
Versions:
0.6.21
Build Dependencies:
gnuconfig, glib
Link Dependencies:
glib
Description:
A library to parse an EXIF file and read the data from those tags

libfabric

Homepage:
Spack package:
Versions:
master, 1.14.1, 1.14.0, 1.13.2, 1.13.1, 1.12.1, 1.12.0, 1.11.2, 1.11.1, 1.11.0, 1.10.1, 1.10.0, 1.9.1, 1.9.0, 1.8.1, 1.8.0, 1.7.1, 1.7.0, 1.6.2, 1.6.1, 1.6.0, 1.5.3, 1.5.0, 1.4.2
Build Dependencies:
gnuconfig, rdma-core, opa-psm2, psm, ucx, m4, autoconf, automake, libtool
Link Dependencies:
rdma-core, opa-psm2, psm, ucx
Description:
The Open Fabrics Interfaces (OFI) is a framework focused on exporting fabric communication services to applications.

libfastcommon

Homepage:
Spack package:
Versions:
1.0.43, 1.0.42, 1.0.41, 1.0.40, 1.0.39
Description:
Libfastcommon is a c common functions library extracted from my open source project FastDFS. this library is very simple and stable. functions including: string, logger, chain, hash, socket, ini file reader, base64 encode / decode, url encode / decode, fast timer, skiplist, object pool etc. detail info please see the c header files.

libfastjson

Homepage:
Spack package:
Versions:
0.99.8, 0.99.7, 0.99.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
a fast json library for C.

libffi

Homepage:
Spack package:
Versions:
3.4.2, 3.3, 3.2.1
Build Dependencies:
gnuconfig
Description:
The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.

libffs

Homepage:
Spack package:
Versions:
develop, 1.5, 1.1.1, 1.1
Build Dependencies:
cmake, flex, bison, gtkorvo-cercs-env, gtkorvo-atl, gtkorvo-dill
Link Dependencies:
gtkorvo-atl, gtkorvo-dill
Description:
FFS is a middleware library for data communication, including representation, processing and marshaling that preserves the performance of traditional approaches while relaxing the requirement of a priori knowledge and providing complex run-time flexibility.

libfive

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, pkgconfig, boost, eigen, libpng, guile, qt
Link Dependencies:
boost, eigen, libpng, python, guile, qt
Run Dependencies:
python
Description:
libfive is a software library and set of tools for solid modeling.

libflame

Homepage:
Spack package:
Versions:
master, 5.2.0, 5.1.0
Build Dependencies:
gnuconfig, blas, python
Link Dependencies:
blas
Description:
libflame is a portable library for dense matrix computations, providing much of the functionality present in LAPACK, developed by current and former members of the Science of High-Performance Computing (SHPC) group in the Institute for Computational Engineering and Sciences at The University of Texas at Austin. libflame includes a compatibility layer, lapack2flame, which includes a complete LAPACK implementation.

libfms

Homepage:
Spack package:
Versions:
develop, 0.2.0
Build Dependencies:
cmake, conduit
Link Dependencies:
conduit
Description:
Field and Mesh Specification (FMS) library

libfontenc

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, zlib, xproto, pkgconfig, util-macros
Link Dependencies:
zlib, xproto
Description:
libfontenc - font encoding library.

libfs

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, xproto, fontsproto, xtrans, pkgconfig, util-macros
Link Dependencies:
xproto, fontsproto, xtrans
Description:
libFS - X Font Service client library. This library is used by clients of X Font Servers (xfs), such as xfsinfo, fslsfonts, and the X servers themselves.

libfuse

Homepage:
Spack package:
Versions:
3.10.5, 3.10.4, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.9.4, 3.9.3, 3.9.2, 2.9.9
Build Dependencies:
meson, ninja, autoconf, automake, libtool, gettext
Description:
The reference implementation of the Linux FUSE (Filesystem in Userspace) interface

libfyaml

Homepage:
Spack package:
Versions:
0.7.12, 0.5.7
Build Dependencies:
gnuconfig, m4
Description:
Fully feature complete YAML parser and emitter, supporting the latest YAML spec and passing the full YAML testsuite.

libgain

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
gnuconfig
Description:
GaIn is intended to provide routines with a relatively simple interface for calculation of overlap, kinetic and 2,3 and 4 center Coulomb integrals over either Solid or Cubic Harmonics Gaussian basis sets.

libgcrypt

Homepage:
Spack package:
Versions:
1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.8.7, 1.8.6, 1.8.5, 1.8.4, 1.8.1, 1.7.6, 1.6.2
Build Dependencies:
gnuconfig, libgpg-error
Link Dependencies:
libgpg-error
Description:
Cryptographic library based on the code from GnuPG.

libgd

Homepage:
Spack package:
Versions:
2.2.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, pkgconfig, iconv, libpng, jpeg, libtiff, fontconfig
Link Dependencies:
iconv, libpng, jpeg, libtiff, fontconfig
Description:
GD is an open source code library for the dynamic creation of images by programmers. GD is written in C, and "wrappers" are available for Perl, PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP images, among other formats. GD is commonly used to generate charts, graphics, thumbnails, and most anything else, on the fly. While not restricted to use on the web, the most common applications of GD involve website development.

libgeotiff

Homepage:
Spack package:
Versions:
1.6.0, 1.5.1, 1.5.0, 1.4.3, 1.4.2
Build Dependencies:
gnuconfig, zlib, jpeg, libtiff, proj
Link Dependencies:
zlib, jpeg, libtiff, proj
Description:
GeoTIFF represents an effort by over 160 different remote sensing, GIS, cartographic, and surveying related companies and organizations to establish a TIFF based interchange format for georeferenced raster imagery.

libgff

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
cmake
Description:
Lightweight GTF/GFF Parser, exposes a C++ interface without drawing in a heavyweight dependency.

libgit2

Homepage:
Spack package:
Versions:
1.4.3, 1.4.2, 1.4.1, 1.4.0, 1.3.1, 1.3.0, 1.2.0, 1.1.1, 1.1.0, 1.0.1, 1.0.0, 0.99.0, 0.28.5, 0.28.4, 0.28.3, 0.28.2, 0.28.1, 0.28.0, 0.27.10, 0.27.9, 0.27.8, 0.27.7, 0.27.6, 0.27.5, 0.27.4, 0.27.3, 0.27.2, 0.27.1, 0.27.0, 0.26.8, 0.26.7, 0.26.6, 0.26.5, 0.26.4, 0.26.3, 0.26.2, 0.26.1, 0.26.0
Build Dependencies:
cmake, pkgconfig, libssh2, openssl, curl
Link Dependencies:
libssh2, openssl, curl
Description:
libgit2 is a portable, pure C implementation of the Git core methods provided as a re-entrant linkable library with a solid API, allowing you to write native speed custom Git applications in any language which supports C bindings.

libgpg-error

Homepage:
Spack package:
Versions:
1.43, 1.42, 1.41, 1.40, 1.37, 1.36, 1.27, 1.21, 1.18
Build Dependencies:
gnuconfig, awk
Description:
Common error values for all GnuPG components.

libgpuarray

Homepage:
Spack package:
Versions:
0.7.6, 0.7.5, 0.7.2, 0.7.1, 0.7.0, 0.6.9, 0.6.2, 0.6.1, 0.6.0
Build Dependencies:
cmake, cuda, check
Link Dependencies:
cuda, check
Description:
Make a common GPU ndarray(n dimensions array) that can be reused by all projects that is as future proof as possible, while keeping it easy to use for simple need/quick test.

libgridxc

Homepage:
Spack package:
Versions:
0.9.6, 0.9.5, 0.9.1, 0.8.5, 0.8.4, 0.8.3, 0.8.0, 0.7.6
Build Dependencies:
autoconf, automake, libtool, m4, libxc
Link Dependencies:
libxc
Description:
A library to compute the exchange and correlation energy and potential in spherical (i.e. an atom) or periodic systems.

libgssglue

Homepage:
Spack package:
Versions:
0.4, 0.3, 0.2
Build Dependencies:
gnuconfig
Description:
GSSAPI interface using mechanisms from other GSSAPI implementations.

libgtextutils

Homepage:
Spack package:
Versions:
0.7
Build Dependencies:
gnuconfig
Description:
Gordon's Text utils Library.

libharu

Homepage:
Spack package:
Versions:
master, 2.3.0, 2.2.0
Build Dependencies:
gnuconfig, libtool, autoconf, automake, libpng, zlib
Link Dependencies:
libpng, zlib
Description:
libharu - free PDF library. Haru is a free, cross platform, open-sourced software library for generating PDF.

libhbaapi

Homepage:
Spack package:
Versions:
3.11, 3.10, 3.9
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The SNIA HBA API library

libhio

Homepage:
Spack package:
Versions:
master, 1.4.1.6, 1.4.1.5, 1.4.1.4, 1.4.1.3, 1.4.1.2, 1.4.1.1, 1.4.1.0
Build Dependencies:
gnuconfig, json-c, bzip2, pkgconfig, mpi, hdf5
Link Dependencies:
json-c, bzip2, mpi, hdf5
Description:
libHIO is a flexible, high-performance parallel IO package developed at LANL. libHIO supports IO to either a conventional PFS or to Cray DataWarp with management of Cray DataWarp space and stage-in and stage- out from and to the PFS.

libhugetlbfs

Homepage:
Spack package:
Versions:
2.22
Description:
libhugetlbfs is a library which provides easy access to huge pages of memory.

libiberty

Homepage:
Spack package:
Versions:
2.37, 2.36.1, 2.36, 2.35.2, 2.35.1, 2.35, 2.34, 2.33.1, 2.32, 2.31.1, 2.30, 2.29.1, 2.28.1
Build Dependencies:
gnuconfig
Description:
The libiberty.a library from GNU binutils. Libiberty provides demangling and support functions for the GNU toolchain.

libibumad

Homepage:
Spack package:
Versions:
25.0
Build Dependencies:
cmake, libnl
Link Dependencies:
libnl
Description:
This package installs the user-space libraries and headers for libibumad. This is a subset of the linux-rdma distribution.

libical

Homepage:
Spack package:
Versions:
3.0.11, 3.0.8
Build Dependencies:
cmake, perl, pkgconfig, glib, icu4c, libxml2
Link Dependencies:
glib, icu4c, libxml2
Description:
Libical - an implementation of iCalendar protocols and data formats.

libice

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, xproto, xtrans, pkgconfig, util-macros
Link Dependencies:
xproto, xtrans
Description:
libICE - Inter-Client Exchange Library.

libiconv

Homepage:
Spack package:
Versions:
1.16, 1.15, 1.14
Build Dependencies:
gnuconfig
Description:
GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.

libid3tag

Homepage:
Spack package:
Versions:
0.15.1b
Build Dependencies:
gnuconfig, zlib, gperf
Link Dependencies:
zlib, gperf
Description:
library for id3 tagging

libidl

Homepage:
Spack package:
Versions:
0.8.14
Build Dependencies:
gnuconfig, flex, bison, pkgconfig, glib
Link Dependencies:
glib
Description:
libraries for Interface Definition Language files

libidn2

Homepage:
Spack package:
Versions:
2.3.0, 2.1.1a, 2.1.1, 2.1.0, 2.0.5
Build Dependencies:
gnuconfig, libunistring
Link Dependencies:
libunistring
Description:
Libidn2 is a free software implementation of IDNA2008, Punycode and TR46. Its purpose is to encode and decode internationalized domain names.

libimagequant

Homepage:
Spack package:
Versions:
2.12.6
Description:
Small, portable C library for high-quality conversion of RGBA images to 8-bit indexed-color (palette) images.

libimobiledevice

Homepage:
Spack package:
Versions:
master, 1.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, libplist, libtasn1, libusbmuxd, openssl
Link Dependencies:
libplist, libtasn1, libusbmuxd, openssl
Description:
Library to communicate with iOS devices natively.

libinih

Homepage:
Spack package:
Versions:
master
Build Dependencies:
meson, ninja
Description:
inih (INI Not Invented Here) is a simple .INI file parser written in C.

libint

Homepage:
Spack package:
Versions:
2.6.0, 2.4.2, 2.4.1, 2.4.0, 2.2.0, 2.1.0, 1.1.6, 1.1.5
Build Dependencies:
gnuconfig, autoconf, automake, libtool, boost, gmp
Link Dependencies:
boost, gmp
Description:
Libint is a high-performance library for computing Gaussian integrals in quantum mechanics.

libisal

Homepage:
Spack package:
Versions:
2.29.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, nasm
Description:
ISA-L is a collection of optimized low-level functions targeting storage applications.

libiscsi

Homepage:
Spack package:
Versions:
1.19.0, 1.18.0, 1.17.0, 1.16.0, 1.15.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Libiscsi is a client-side library to implement the iSCSI protocol that can be used to access the resources of an iSCSI target.

libjpeg

Homepage:
Spack package:
Versions:
9e, 9d, 9c, 9b, 9a
Build Dependencies:
gnuconfig
Description:
libjpeg is a widely used free library with functions for handling the JPEG image data format. It implements a JPEG codec (encoding and decoding) alongside various utilities for handling JPEG data.

libjpeg-turbo

Homepage:
Spack package:
Versions:
2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.6, 2.0.5, 2.0.4, 2.0.3, 2.0.2, 1.5.90, 1.5.3, 1.5.0, 1.3.1
Build Dependencies:
nasm, autoconf, automake, libtool, cmake
Description:
libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression. libjpeg is a library that implements JPEG image encoding, decoding and transcoding.

libjson

Homepage:
Spack package:
Versions:
0.8, 0.7, 0.6, 0.5, 0.4
Description:
libjson is a simple library without any dependancies to parse and pretty print the JSON format (RFC 4627). The JSON format is a concise and structured data format.

libjwt

Homepage:
Spack package:
Versions:
1.12.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, openssl, jansson
Link Dependencies:
jansson
Run Dependencies:
openssl
Description:
libjwt JSON Web Token C Library

libkcapi

Homepage:
Spack package:
Versions:
1.2.0, 1.1.5, 1.1.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libkcapi allows user-space to access the Linux kernel crypto API.

libkml

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
cmake, jdk, python, boost, expat, minizip, uriparser, zlib, swig
Link Dependencies:
boost, expat, minizip, uriparser, zlib, googletest
Run Dependencies:
jdk, python
Description:
Reference implementation of OGC KML 2.2.

libksba

Homepage:
Spack package:
Versions:
1.6.0, 1.5.1, 1.5.0, 1.4.0, 1.3.5
Build Dependencies:
gnuconfig, libgpg-error
Link Dependencies:
libgpg-error
Description:
Libksba is a library to make the tasks of working with X.509 certificates, CMS data and related objects easier.

liblas

Homepage:
Spack package:
Versions:
1.8.1
Build Dependencies:
cmake, libgeotiff, boost, laszip, gdal
Link Dependencies:
libgeotiff, boost, laszip, gdal
Description:
libLAS is a C/C++ library for reading and writing the very common LAS LiDAR format.

liblbfgs

Homepage:
Spack package:
Versions:
master, 1.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libLBFGS is a C port of the implementation of Limited-memory Broyden- Fletcher-Goldfarb-Shanno (L-BFGS) method written by Jorge Nocedal. The L-BFGS method solves the unconstrainted minimization problem: minimize F(x), x = (x1, x2, ..., xN), only if the objective function F(x) and its gradient G(x) are computable.

liblbxutil

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, xextproto, xproto, pkgconfig, util-macros
Link Dependencies:
xextproto, xproto, zlib
Description:
liblbxutil - Low Bandwith X extension (LBX) utility routines.

liblockfile

Homepage:
Spack package:
Versions:
1.14
Build Dependencies:
gnuconfig
Description:
NFS-safe locking library

liblognorm

Homepage:
Spack package:
Versions:
2.0.6, 2.0.5, 2.0.4, 2.0.3, 2.0.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libestr, libfastjson
Link Dependencies:
libestr, libfastjson
Description:
Liblognorm is a fast-samples based normalization library.

liblouis

Homepage:
Spack package:
Versions:
3.17.0, 3.15.0, 3.14.0, 3.13.0, 3.12.0, 3.11.0
Build Dependencies:
gnuconfig
Description:
Liblouis is an open-source braille translator and back-translator named in honor of Louis Braille.

libluv

Homepage:
Spack package:
Versions:
1.43.0-0, 1.42.0-1, 1.42.0-0, 1.36.0-0
Build Dependencies:
cmake
Link Dependencies:
lua-lang, libuv
Description:
This library makes libuv available to lua scripts. It was made for the luvit project but should usable from nearly any lua project.

liblzf

Homepage:
Spack package:
Versions:
3.6
Build Dependencies:
gnuconfig
Description:
LibLZF is a very small data compression library. It consists of only two .c and two .h files and is very easy to incorporate into your own programs. The compression algorithm is very, very fast, yet still written in portable C.

libmacaroons

Homepage:
Spack package:
Versions:
0.3.0, 0.2.0, 0.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libsodium
Link Dependencies:
libsodium
Description:
"This library provides an implementation of macaroons[1], which are flexible authorization tokens that work great in distributed systems.

libmad

Homepage:
Spack package:
Versions:
0.15.1b
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
MAD is a high-quality MPEG audio decoder.

libmatheval

Homepage:
Spack package:
Versions:
1.1.11
Build Dependencies:
gnuconfig, guile, flex
Link Dependencies:
flex
Description:
GNU libmatheval is a library (callable from C and Fortran) to parse and evaluate symbolic expressions input as text. It supports expressions in any number of variables of arbitrary names, decimal and symbolic constants, basic unary and binary operators, and elementary mathematical functions. In addition to parsing and evaluation, libmatheval can also compute symbolic derivatives and output expressions to strings.

libmaus2

Homepage:
Spack package:
Versions:
2.0.767
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libmaus2 is a collection of data structures and algorithmse.

libmaxminddb

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
gnuconfig
Description:
C library for the MaxMind DB file format

libmbim

Homepage:
Spack package:
Versions:
1.20.4, 1.18.0, 1.16.2, 1.16.0, 1.14.4, 1.14.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, glib
Link Dependencies:
glib
Description:
Libmbim is a glib-based library for talking to WWAN modems and devices which speak the Mobile Interface Broadband Model (MBIM) protocol.

libmcrypt

Homepage:
Spack package:
Versions:
2.5.8
Build Dependencies:
gnuconfig
Description:
Libmcrypt is a thread-safe library providing a uniform interface to access several block and stream encryption algorithms.

libmd

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
gnuconfig
Description:
This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.

libmesh

Homepage:
Spack package:
Versions:
master, 1.4.1, 1.4.0, 1.3.1, 1.3.0, 1.2.1, 1.0.0
Build Dependencies:
gnuconfig, boost, eigen, hdf5, mpi, perl, petsc, slepc, tbb, vtk
Link Dependencies:
boost, eigen, hdf5, mpi, perl, petsc, slepc, tbb, vtk
Description:
The libMesh library provides a framework for the numerical simulation of partial differential equations using arbitrary unstructured discretizations on serial and parallel platforms.

libmicrodns

Homepage:
Spack package:
Versions:
0.2.0, 0.1.2, 0.1.1
Build Dependencies:
meson, ninja
Description:
Minimal mDNS resolver (and announcer) cross-platform library.

libmicrohttpd

Homepage:
Spack package:
Versions:
0.9.71, 0.9.70
Build Dependencies:
gnuconfig, gettext, gnutls, libgcrypt
Link Dependencies:
gettext, gnutls, libgcrypt
Description:
GNU libmicrohttpd is a small C library that is supposed to make it easy to run an HTTP server as part of another application.

libmmtf-cpp

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
cmake, msgpack-c
Link Dependencies:
msgpack-c
Description:
The macromolecular transmission format (MMTF) is a binary encoding of biological structures. This repository holds the C++-03 compatible API, encoding and decoding libraries.

libmng

Homepage:
Spack package:
Versions:
2.0.3, 2.0.2
Build Dependencies:
cmake, jpeg, zlib, lcms
Link Dependencies:
jpeg, zlib, lcms
Description:
THE reference library for reading, displaying, writing and examining Multiple-Image Network Graphics. MNG is the animation extension to the popular PNG image format.

libmnl

Homepage:
Spack package:
Versions:
1.0.3, 1.0.2, 1.0.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libmnl is a minimalistic user-space library oriented to Netlink developers.There are a lot of common tasks in parsing, validating, constructing of both the Netlink header and TLVs that are repetitive and easy to get wrong.This library aims to provide simple helpers that allows you to re-use code and to avoid re-inventing the wheel.

libmo-unpack

Homepage:
Spack package:
Versions:
3.1.2
Build Dependencies:
cmake, check
Link Dependencies:
check
Description:
A library for handling the WGDOS and RLE compression schemes used in UM files.

libmodbus

Homepage:
Spack package:
Versions:
3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.0.8, 3.0.7, 3.0.6, 3.0.5
Build Dependencies:
gnuconfig
Description:
libmodbus is a free software library to send/receive data according to the Modbus protocol.This library is written in C and supports RTU (serial) and TCP (Ethernet) communications.

libmonitor

Homepage:
Spack package:
Versions:
master, 2021.11.08, 2021.04.27, 2020.10.15, 2019.05.31, 2018.07.18, 2013.02.18
Build Dependencies:
gnuconfig
Description:
Libmonitor is a library providing callback functions for the begin and end of processes and threads. It provides a layer on which to build process monitoring tools and profilers.

libmpdclient

Homepage:
Spack package:
Versions:
2.19, 2.18, 2.17, 2.16, 2.15
Build Dependencies:
meson, ninja
Description:
Libmpdclient is a C library which implements the Music Player Daemon protocol.

libnbc

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
LibNBC is a prototypic implementation of a nonblocking interface for MPI collective operations. Based on ANSI C and MPI-1, it supports all MPI-1 collective operations in a nonblocking manner. LibNBC is distributed under the BSD license.

libndp

Homepage:
Spack package:
Versions:
1.7, 1.6, 1.5, 1.4, 1.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Libndp - Library for Neighbor Discovery Protocol

libnet

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Libnet is an API to help with the construction and handling of network packets. It provides a portable framework for low-level network packet writing and handling

libnetfilter-conntrack

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3, 1.0.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, libmnl, libnfnetlink
Link Dependencies:
libmnl, libnfnetlink
Description:
libnetfilter_conntrack is a userspace library providing a programming interface (API) to the in-kernel connection tracking state table.

libnetfilter-cthelper

Homepage:
Spack package:
Versions:
1.2-2019Q4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libmnl
Link Dependencies:
libmnl
Description:
Libnetfilter-cthelper library for user space helpers / ALGs

libnetfilter-cttimeout

Homepage:
Spack package:
Versions:
1.2-2019Q4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libmnl
Link Dependencies:
libmnl
Description:
Conntrack timeout policy library.

libnetfilter-queue

Homepage:
Spack package:
Versions:
1.2-2019Q4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libnfnetlink, libmnl
Link Dependencies:
libnfnetlink, libmnl
Description:
Libnetfilter-queue libnetfilter queue library.

libnetworkit

Homepage:
Spack package:
Versions:
9.0, 8.1, 8.0, 7.1, 7.0, 6.1
Build Dependencies:
cmake, libtlx, llvm-openmp, py-sphinx
Link Dependencies:
libtlx, llvm-openmp
Description:
NetworKit is a growing open-source toolkit for large-scale network analysis. Its aim is to provide tools for the analysis of large networks in the size range from thousands to billions of edges. For this purpose, it implements efficient graph algorithms, many of them parallel to utilize multicore architectures. These are meant to compute standard measures of network analysis, such as degree sequences, clustering coefficients, and centrality measures. In this respect, NetworKit is comparable to packages such as NetworkX, albeit with a focus on parallelism and scalability.

libnfs

Homepage:
Spack package:
Versions:
4.0.0, 3.0.0, 2.0.0, 1.11.0, 1.10.0
Build Dependencies:
cmake
Description:
LIBNFS is a client library for accessing NFS shares over a network.

libnfsidmap

Homepage:
Spack package:
Versions:
0-26, 0-25
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Library to help mapping id's, mainly for NFSv4.

libnftnl

Homepage:
Spack package:
Versions:
1.1.6, 1.1.5, 1.1.4
Build Dependencies:
gnuconfig, pkgconfig, libmnl
Link Dependencies:
libmnl
Description:
A library for low-level interaction with nftables Netlink's API over libmnl.

libnids

Homepage:
Spack package:
Versions:
master, 1.25
Build Dependencies:
gnuconfig, libpcap, libnet, glib
Link Dependencies:
libpcap, libnet, glib
Description:
Libnids is a library that provides a functionality of one of NIDS (Network Intrusion Detection System) components, namely E-component.

libnl

Homepage:
Spack package:
Versions:
3.3.0
Build Dependencies:
gnuconfig, bison, flex, m4
Description:
libnl - Netlink Protocol Library Suite

libnotify

Homepage:
Spack package:
Versions:
0.7.9
Build Dependencies:
meson, ninja, pkgconfig, glib, gtkplus, gobject-introspection, libxslt, docbook-xsl
Link Dependencies:
glib, gtkplus, gobject-introspection
Description:
libnotify is a library for sending desktop notifications

libnova

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Link Dependencies:
m4, autoconf, automake, libtool
Description:
"libnova is a general purpose, double precision, Celestial Mechanics, Astrometry and Astrodynamics library.

libnrm

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, pkgconfig, libzmq, mpich
Link Dependencies:
libzmq, mpich
Description:
Libnrm, the application instrumentation library for the Node Resource Manager(NRM).

libnsl

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, gettext, rpcsvc-proto, libtirpc
Link Dependencies:
gettext, rpcsvc-proto, libtirpc
Description:
This library contains the public client interface for NIS(YP) and NIS+ in a IPv6 ready version.

libogg

Homepage:
Spack package:
Versions:
1.3.5, 1.3.4, 1.3.2
Build Dependencies:
gnuconfig
Description:
Ogg is a multimedia container format, and the native file and stream format for the Xiph.org multimedia codecs.

liboldx

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, pkgconfig, util-macros
Link Dependencies:
libx11
Description:
X version 10 backwards compatibility.

libopts

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig
Description:
LibOPT is an optimization library developed in C language for the development of metaheuristic-based techniques.

libp11

Homepage:
Spack package:
Versions:
0.4.11, 0.4.10, 0.4.9, 0.4.8
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, openssl
Link Dependencies:
openssl
Description:
The PKCS#11 API is an abstract API to perform operations on cryptographic objects such as private keys, without requiring access to the objects themselves. That is, it provides a logical separation of the keys from the operations. The PKCS #11 API is mainly used to access objects in smart cards and Hardware or Software Security Modules (HSMs). That is because in these modules the cryptographic keys are isolated in hardware or software and are not made available to the applications using them.

libpam

Homepage:
Spack package:
Versions:
1.09, 1.08, 1.07
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, linux-pam
Link Dependencies:
linux-pam
Description:
Example PAM module demonstrating two-factor authentication for logging into servers via SSH, OpenVPN, etc

libpaper

Homepage:
Spack package:
Versions:
1.1.28
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The paper library and accompanying files are intended to provide a simple way for applications to take actions based on a system- or user- specified paper size.

libpcap

Homepage:
Spack package:
Versions:
1.10.0, 1.9.1, 1.8.1
Build Dependencies:
gnuconfig, flex, bison
Description:
libpcap is a portable library in C/C++ for packet capture.

libpciaccess

Homepage:
Spack package:
Versions:
0.16, 0.13.5, 0.13.4
Build Dependencies:
gnuconfig, libtool, pkgconfig, util-macros
Description:
Generic PCI access library.

libpeas

Homepage:
Spack package:
Versions:
1.22.0
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, gettext, pkgconfig, atk, intltool, xmlto, perl, perl-xml-parser, glib, gobject-introspection, libffi, gtkplus, gdk-pixbuf, pango, gnome-common, py-pygobject, python
Link Dependencies:
atk, intltool, glib, gobject-introspection, libffi, gtkplus, gdk-pixbuf, pango, gnome-common
Description:
libpeas is a gobject-based plugins engine, and is targeted at giving every application the chance to assume its own extensibility.

libpfm4

Homepage:
Spack package:
Versions:
4.11.0, 4.10.1, 4.9.0, 4.8.0
Description:
libpfm4 is a userspace library to help setup performance events for use with the perf_events Linux kernel interface.

libpipeline

Homepage:
Spack package:
Versions:
1.5.5, 1.4.2
Build Dependencies:
gnuconfig, pkgconfig
Test Dependencies:
check
Description:
libpipeline is a C library for manipulating pipelines of subprocesses in a flexible and convenient way.

libplist

Homepage:
Spack package:
Versions:
master, 2.2.0, 2.0.0, 1.10, 1.9, 1.8, 1.7, 1.6, 1.5, 1.4, 1.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig
Description:
Library for Apple Binary- and XML-Property Lists.

libpmemobj-cpp

Homepage:
Spack package:
Versions:
develop, 1.12, 1.11, 1.10, 1.9, 1.8, 1.7, 1.6, 1.5.1, 1.5
Build Dependencies:
cmake, pmdk
Link Dependencies:
pmdk
Description:
C++ bindings for libpmemobj (https://github.com/pmem/pmdk)

libpng

Homepage:
Spack package:
Versions:
1.6.37, 1.5.30, 1.2.57
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
libpng is the official PNG reference library.

libproxy

Homepage:
Spack package:
Versions:
0.4.17, 0.4.16, 0.4.15, 0.4.14, 0.4.13
Build Dependencies:
cmake, zlib, perl, python
Link Dependencies:
zlib
Run Dependencies:
perl, python
Description:
libproxy is a library that provides automatic proxy configuration management.

libpsl

Homepage:
Spack package:
Versions:
0.17.0
Build Dependencies:
gnuconfig, icu4c, gettext, pkgconfig, python
Link Dependencies:
icu4c
Test Dependencies:
valgrind
Description:
libpsl - C library to handle the Public Suffix List.

libpsml

Homepage:
Spack package:
Versions:
1.1.10, 1.1.9, 1.1.8, 1.1.7, 1.1.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, xmlf90
Link Dependencies:
xmlf90
Description:
libPSML is a library to handle pseudopotentials in PSML format.

libpthread-stubs

Homepage:
Spack package:
Versions:
0.4, 0.3
Build Dependencies:
gnuconfig
Description:
The libpthread-stubs package provides weak aliases for pthread functions not provided in libc or otherwise available by default.

libpulsar

Homepage:
Spack package:
Versions:
2.7.0
Build Dependencies:
cmake, zstd, boost, protobuf, pkgconfig, openssl, curl
Link Dependencies:
zstd, boost, protobuf, pkgconfig, openssl, curl
Description:
libpulsar is a C/C++ client library implementation of the Apache Pulsar protocol.

libqglviewer

Homepage:
Spack package:
Versions:
2.7.2
Build Dependencies:
qt, freeglut
Link Dependencies:
qt, freeglut, glu
Description:
libQGLViewer is a C++ library based on Qt that eases the creation of OpenGL 3D viewers.

libqrencode

Homepage:
Spack package:
Versions:
master, 4.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig
Link Dependencies:
libpng
Description:
libqrencode - a fast and compact QR Code encoding library.

libquo

Homepage:
Spack package:
Versions:
master, 1.3.1, 1.3, 1.2.9
Build Dependencies:
gnuconfig, mpi, m4, autoconf, automake, libtool
Link Dependencies:
mpi
Description:
QUO (as in "status quo") is a runtime library that aids in accommodating thread-level heterogeneity in dynamic, phased MPI+X applications comprising single- and multi-threaded libraries.

libraw1394

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig
Description:
libbraw1394 provides direct access to the IEEE 1394 bus through the Linux 1394 subsystem's raw1394 user space interface.

librdkafka

Homepage:
Spack package:
Versions:
1.5.0, 1.4.4, 1.4.2
Build Dependencies:
gnuconfig, zstd, lz4
Link Dependencies:
zstd, lz4
Description:
librdkafka is a C library implementation of the Apache Kafka protocol.

librelp

Homepage:
Spack package:
Versions:
1.7.0, 1.6.0, 1.5.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, openssl, gnutls
Link Dependencies:
openssl, gnutls
Test Dependencies:
valgrind
Description:
Librelp is an easy to use library for the RELP protocol. RELP (stands for Reliable Event Logging Protocol) is a general-purpose, extensible logging protocol.

libristra

Homepage:
Spack package:
Versions:
master, 1.0.0
Build Dependencies:
cmake, mpi, boost, lua, paraview, googletest
Link Dependencies:
cmake, mpi, boost, lua, paraview, googletest
Description:
The ristra library is a set of support utilities for ristra codes, including simple mathematical operations, physical units, and input parsing

librmm

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
cmake, cuda
Link Dependencies:
cuda
Description:
RMM: RAPIDS Memory Manager. Achieving optimal performance in GPU-centric workflows frequently requires customizing how host and device memory are allocated.

librom

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuconfig, lapack, mpi, zlib, libszip, hdf5, perl, graphviz, doxygen, boost
Link Dependencies:
lapack, mpi, zlib, libszip, hdf5, perl, graphviz, doxygen, boost
Description:
libROM: library for computing large-scale reduced order models

librsb

Homepage:
Spack package:
Versions:
1.3.0.1, 1.3.0.0, 1.2.0.11, 1.2.0.10, 1.2.0.9, 1.2.0.8
Build Dependencies:
gnuconfig, zlib, googletest
Link Dependencies:
zlib
Description:
librsb : A shared memory parallel sparse matrix computations library for the Recursive Sparse Blocks format

librsvg

Homepage:
Spack package:
Versions:
2.51.0, 2.50.2, 2.50.0, 2.44.14
Build Dependencies:
gnuconfig, gobject-introspection, pkgconfig, rust, gtk-doc, cairo, gdk-pixbuf, glib, libcroco, pango, libffi, libxml2, shared-mime-info
Link Dependencies:
cairo, gdk-pixbuf, glib, libcroco, pango, libffi, libxml2, shared-mime-info
Description:
Library to render SVG files using Cairo

librtlsdr

Homepage:
Spack package:
Versions:
0.6.0, 0.5.4
Build Dependencies:
cmake, libusb
Link Dependencies:
libusb
Description:
turns your Realtek RTL2832 based DVB dongle into a SDR receiver.

librttopo

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, geos
Link Dependencies:
geos
Description:
The RT Topology Library exposes an API to create and manage standard (ISO 13249 aka SQL/MM) topologies using user-provided data stores.

libsakura

Homepage:
Spack package:
Versions:
4.0.2065, 3.0.2025
Build Dependencies:
cmake, eigen, fftw, log4cxx
Link Dependencies:
eigen, fftw, log4cxx
Description:
High-performance, thread-safe library compatible with C and C++ that is optimized for data analysis of astronomy and astrophysics.

libsamplerate

Homepage:
Spack package:
Versions:
0.1.9, 0.1.8
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
libsamplerate (also known as Secret Rabbit Code) is a library for performing sample rate conversion of audio data.

libseccomp

Homepage:
Spack package:
Versions:
2.5.3, 2.3.3
Build Dependencies:
gnuconfig, gperf, py-cython
Description:
The main libseccomp repository

libsecret

Homepage:
Spack package:
Versions:
0.18.8
Build Dependencies:
gnuconfig, pkgconfig, glib, libgcrypt, gobject-introspection
Link Dependencies:
glib, libgcrypt, gobject-introspection
Description:
libsecret is a library for storing and retrieving passwords and other secrets. It communicates with the "Secret Service" using D-Bus. gnome- keyring and ksecretservice are both implementations of a Secret Service. libsecret replaces libgnome-keyring

libsharp

Homepage:
Spack package:
Versions:
2018-01-17, 1.0.0
Build Dependencies:
gnuconfig, autoconf, mpi
Link Dependencies:
mpi
Description:
Libsharp is a code library for spherical harmonic transforms (SHTs) and spin-weighted spherical harmonic transforms, which evolved from the libpsht library.

libshm

Homepage:
Spack package:
Versions:
master
Description:
Libshm is a header library making an easy C++11 access to a shared memory.

libsigcpp

Homepage:
Spack package:
Versions:
2.99.12, 2.9.3, 2.1.1, 2.0.3
Build Dependencies:
gnuconfig, m4
Description:
Libsigc++ is a C++ library for typesafe callbacks

libsignal-protocol-c

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
cmake
Description:
C library for the Signal protocol

libsigsegv

Homepage:
Spack package:
Versions:
2.13, 2.12, 2.11, 2.10
Build Dependencies:
gnuconfig
Description:
GNU libsigsegv is a library for handling page faults in user mode.

libslirp

Homepage:
Spack package:
Versions:
4.6.1
Build Dependencies:
meson, ninja, pkgconfig, glib
Link Dependencies:
glib
Description:
General purpose TCP-IP emulator

libsm

Homepage:
Spack package:
Versions:
1.2.3, 1.2.2
Build Dependencies:
gnuconfig, libice, uuid, xproto, xtrans, pkgconfig, util-macros
Link Dependencies:
libice, uuid, xproto, xtrans
Description:
libSM - X Session Management Library.

libsndfile

Homepage:
Spack package:
Versions:
1.0.28
Build Dependencies:
gnuconfig, pkgconfig, alsa-lib, flac, libogg, libvorbis, sqlite
Link Dependencies:
alsa-lib, flac, libogg, libvorbis, sqlite
Description:
Libsndfile is a C library for reading and writing files containing sampled sound (such as MS Windows WAV and the Apple/SGI AIFF format) through one standard library interface. It is released in source code format under the Gnu Lesser General Public License.

libsodium

Homepage:
Spack package:
Versions:
1.0.18, 1.0.17, 1.0.16, 1.0.15, 1.0.13, 1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.7.1
Build Dependencies:
gnuconfig
Description:
Sodium is a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more.

libspatialindex

Homepage:
Spack package:
Versions:
1.9.3, 1.8.5
Build Dependencies:
cmake
Description:
C++ implementation of R*-tree, an MVR-tree and a TPR-tree with C API.

libspatialite

Homepage:
Spack package:
Versions:
5.0.1, 5.0.0.2.c7f67038bf, 5.0.0-beta0, 5.0.0, 4.3.0a, 3.0.1
Build Dependencies:
gnuconfig, pkgconfig, sqlite, proj, geos, freexl, iconv, libxml2, minizip, librttopo
Link Dependencies:
sqlite, proj, geos, freexl, iconv, libxml2, minizip, librttopo
Description:
SpatiaLite is an open source library intended to extend the SQLite core to support fully fledged Spatial SQL capabilities.

libspiro

Homepage:
Spack package:
Versions:
20200505, 20190731
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Spiro is the creation of Raph Levien. It simplifies the drawing of beautiful curves.

libsplash

Homepage:
Spack package:
Versions:
develop, master, 1.7.0, 1.6.0, 1.5.0, 1.4.0, 1.3.1, 1.2.4
Build Dependencies:
cmake, hdf5, mpi
Link Dependencies:
hdf5, mpi
Description:
libSplash aims at developing a HDF5-based I/O library for HPC simulations. It is created as an easy-to-use frontend for the standard HDF5 library with support for MPI processes in a cluster environment. While the standard HDF5 library provides detailed low-level control, libSplash simplifies tasks commonly found in large-scale HPC simulations, such as iterative computations and MPI distributed processes.

libssh

Homepage:
Spack package:
Versions:
0.8.5, 0.7.5
Build Dependencies:
cmake, openssl, zlib, krb5
Link Dependencies:
openssl, zlib, krb5
Description:
libssh: the SSH library

libssh2

Homepage:
Spack package:
Versions:
1.10.0, 1.9.0, 1.8.0, 1.7.0, 1.4.3
Build Dependencies:
cmake, openssl, mbedtls, zlib, xz
Link Dependencies:
openssl, mbedtls, zlib, xz
Description:
libssh2 is a client-side C library implementing the SSH2 protocol

libsvm

Homepage:
Spack package:
Versions:
323, 322
Description:
Libsvm is a simple, easy-to-use, and efficient software for SVM classification and regression.

libszip

Homepage:
Spack package:
Versions:
2.1.1, 2.1
Build Dependencies:
gnuconfig
Description:
Szip is an implementation of the extended-Rice lossless compression algorithm. It provides lossless compression of scientific data, and is provided with HDF software products.

libtar

Homepage:
Spack package:
Versions:
1.2.20, 1.2.19, 1.2.18
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libtar is a library for manipulating tar files from within C programs.

libtasn1

Homepage:
Spack package:
Versions:
4.13, 4.12, 4.10, 4.9, 4.8, 4.7, 4.6, 4.5, 4.4, 4.3, 4.2, 4.1, 4.0
Description:
ASN.1 structure parser library.

libtermkey

Homepage:
Spack package:
Versions:
0.22, 0.18, 0.17, 0.16, 0.15b, 0.14
Build Dependencies:
libtool, unibilium, pkgconfig
Link Dependencies:
unibilium, pkgconfig
Description:
Easy keyboard entry processing for terminal programs

libthai

Homepage:
Spack package:
Versions:
0.1.28, 0.1.27
Build Dependencies:
gnuconfig, libdatrie, doxygen
Link Dependencies:
libdatrie
Description:
LibThai is a set of Thai language support routines aimed to ease developers' tasks to incorporate Thai language support in their applications. It includes important Thai-specific functions e.g. word breaking, input and output methods as well as basic character and string supports.

libtheora

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, doxygen, libogg, libpng
Link Dependencies:
libogg, libpng
Description:
Theora Video Compression.

libtiff

Homepage:
Spack package:
Versions:
4.3.0, 4.2.0, 4.1.0, 4.0.10, 4.0.9, 4.0.8, 4.0.7, 4.0.6, 3.9.7
Build Dependencies:
gnuconfig, zlib, jpeg, jbigkit, lerc, xz, zstd, libwebp, gl, glu, freeglut, libsm, libice, libxi, libx11, automake, autoconf, libtool, m4
Link Dependencies:
zlib, jpeg, jbigkit, lerc, xz, zstd, libwebp, gl, glu, freeglut, libsm, libice, libxi, libx11
Description:
LibTIFF - Tag Image File Format (TIFF) Library and Utilities.

libtirpc

Homepage:
Spack package:
Versions:
1.2.6, 1.1.4
Build Dependencies:
gnuconfig, krb5
Link Dependencies:
krb5
Description:
Libtirpc is a port of Suns Transport-Independent RPC library to Linux.

libtlx

Homepage:
Spack package:
Versions:
0.5.20200222, 0.5.20191212
Build Dependencies:
cmake
Description:
tlx is a collection of C++ helpers and extensions universally needed, but not found in the STL. The most important design goals and conventions are: 1) high modularity with as little dependencies between modules as possible. 2) attempt to never break existing interfaces. 3) compile on all platforms with C++ - smartphones, supercomputers, windows, etc. 4) zero external dependencies: no additional libraries are required. 5) warning and bug-freeness on all compilers. 6) keep overhead down - small overall size such that is can be included without bloating applications.

libtomlc99

Homepage:
Spack package:
Versions:
0.2020.12.23, 0.2019.06.24, 0.2019.05.02, 0.2019.03.06
Description:
TOML in c99; v0.4.0 compliant.

libtommath

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0
Description:
A portable number theoretic multiple-precision integer library.

libtool

Homepage:
Spack package:
Versions:
develop, 2.4.7, 2.4.6, 2.4.2
Build Dependencies:
gnuconfig, m4, autoconf, automake, help2man, xz, texinfo
Test Dependencies:
autoconf, automake
Description:
libtool -- library building part of autotools.

libtorrent

Homepage:
Spack package:
Versions:
0.13.8
Build Dependencies:
gnuconfig
Description:
LibTorrent is a BitTorrent library written in C++, with a focus on high performance and good code.

libtree

Homepage:
Spack package:
Versions:
master, 3.1.1, 3.1.0, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.0.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.4, 1.0.3
Build Dependencies:
cmake, cpp-termcolor, cxxopts, elfio
Run Dependencies:
chrpath, binutils
Test Dependencies:
googletest
Description:
ldd as a tree

libuecc

Homepage:
Spack package:
Versions:
7, 6
Build Dependencies:
cmake
Description:
libuecc is a very small generic-purpose Elliptic Curve Cryptography library compatible with Ed25519.

libunistring

Homepage:
Spack package:
Versions:
master, 0.9.10, 0.9.9, 0.9.8, 0.9.7, 0.9.6
Build Dependencies:
gnuconfig, iconv, autoconf, automake, libtool, texinfo, gperf
Link Dependencies:
iconv
Description:
This library provides functions for manipulating Unicode strings and for manipulating C strings according to the Unicode standard.

libunwind

Homepage:
Spack package:
Versions:
master, 1.6-stable, 1.6.2, 1.5-stable, 1.5.0, 1.4.0, 1.3.1, 1.2.1, 1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
xz, zlib
Description:
A portable and efficient C programming interface (API) to determine the call-chain of a program.

libusb

Homepage:
Spack package:
Versions:
master, 1.0.22, 1.0.21, 1.0.20
Build Dependencies:
gnuconfig, autoconf, automake, libtool
Description:
Library for USB device access.

libusbmuxd

Homepage:
Spack package:
Versions:
master, 1.0.10, 1.0.9
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, libplist
Link Dependencies:
libplist
Description:
A client library to multiplex connections from and to iOS devices.

libuser

Homepage:
Spack package:
Versions:
0.62, 0.61, 0.60
Build Dependencies:
gnuconfig, glib, linux-pam, popt
Link Dependencies:
glib, linux-pam, popt
Description:
A user and group account administration library.

libuuid

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig
Description:
Portable uuid C library

libuv

Homepage:
Spack package:
Versions:
1.44.1, 1.44.0, 1.43.0, 1.42.0, 1.41.1, 1.41.0, 1.40.0, 1.39.0, 1.38.1, 1.25.0, 1.10.0, 1.9.0
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4
Description:
Multi-platform library with a focus on asynchronous IO

libvdwxc

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
gnuconfig, fftw-api, mpi, pfft
Link Dependencies:
fftw-api, mpi, pfft
Description:
Portable C library of density functionals with van der Waals interactions for density functional theory

libverto

Homepage:
Spack package:
Versions:
0.3.1, 0.3.0, 0.2.7
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libverto provides a loop-neutral async api which allows the library to expose asynchronous interfaces and offload the choice of the main loop to the application.

libvips

Homepage:
Spack package:
Versions:
8.10.5, 8.9.1, 8.9.0
Build Dependencies:
gnuconfig, glib, expat, fftw, libjpeg, libtiff, libpng, poppler
Link Dependencies:
glib, expat, fftw, libjpeg, libtiff, libpng, poppler
Description:
libvips is a demand-driven, horizontally threaded image processing library. Compared to similar libraries, libvips runs quickly and uses little memory.

libvorbis

Homepage:
Spack package:
Versions:
1.3.7, 1.3.5
Build Dependencies:
gnuconfig, libogg, pkgconfig
Link Dependencies:
libogg
Description:
Ogg Vorbis is a fully open, non-proprietary, patent-and-royalty-free, general-purpose compressed audio format for mid to high quality (8kHz- 48.0kHz, 16+ bit, polyphonic) audio and music at fixed and variable bitrates from 16 to 128 kbps/channel.

libvori

Homepage:
Spack package:
Versions:
210412, 201229, 201224, 201217
Build Dependencies:
cmake
Description:
Support for Voronoi Integration and lossless BQB compression

libvpx

Homepage:
Spack package:
Versions:
1.10.0
Build Dependencies:
gnuconfig, yasm
Link Dependencies:
yasm
Description:
libvpx is a free software video codec library from Google and the Alliance for Open Media. It serves as the reference software implementation for the VP8 and VP9 video coding formats, and for AV1 a special fork named libaom that was stripped of backwards compatibility.

libvterm

Homepage:
Spack package:
Versions:
0.1.4, 0.1.3, 0.0.0
Build Dependencies:
libtool
Description:
An abstract library implementation of a terminal emulator

libwebp

Homepage:
Spack package:
Versions:
1.2.2, 1.2.0, 1.0.3
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4, giflib, jpeg, libpng, libtiff
Link Dependencies:
giflib, jpeg, libpng, libtiff
Description:
WebP is a modern image format that provides superior lossless and lossy compression for images on the web. Using WebP, webmasters and web developers can create smaller, richer images that make the web faster.

libwebsockets

Homepage:
Spack package:
Versions:
2.2.1, 2.1.1, 2.1.0, 2.0.3, 1.7.9
Build Dependencies:
cmake, zlib, openssl
Link Dependencies:
zlib, openssl
Description:
C library for lightweight websocket clients and servers.

libwhich

Homepage:
Spack package:
Versions:
master, 1.1.0, 1.0.0
Description:
Libwhich: the functionality of which for libraries.

libwindowswm

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, windowswmproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, windowswmproto
Description:
WindowsWM - Cygwin/X rootless window management extension. WindowsWM is a simple library designed to interface with the Windows-WM extension. This extension allows X window managers to better interact with the Cygwin XWin server when running X11 in a rootless mode.

libx11

Homepage:
Spack package:
Versions:
1.7.0, 1.6.7, 1.6.5, 1.6.3
Build Dependencies:
gnuconfig, libxcb, xproto, xextproto, xtrans, kbproto, inputproto, pkgconfig, util-macros, perl
Link Dependencies:
libxcb, xproto, xextproto, xtrans, kbproto, inputproto
Description:
libX11 - Core X11 protocol client library.

libxau

Homepage:
Spack package:
Versions:
1.0.8
Build Dependencies:
gnuconfig, xproto, pkgconfig, util-macros
Link Dependencies:
xproto
Description:
The libXau package contains a library implementing the X11 Authorization Protocol. This is useful for restricting client access to the display.

libxaw

Homepage:
Spack package:
Versions:
1.0.13, 1.0.12
Build Dependencies:
gnuconfig, libx11, libxext, libxt, libxmu, libxpm, xproto, xextproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxt, libxmu, libxpm, xproto, xextproto
Description:
Xaw is the X Athena Widget Set. Xaw is a widget set based on the X Toolkit Intrinsics (Xt) Library.

libxaw3d

Homepage:
Spack package:
Versions:
1.6.2
Build Dependencies:
gnuconfig, libx11, libxt, libxmu, libxext, libxpm, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libxmu, libxext, libxpm
Description:
Xaw3d is the X 3D Athena Widget Set. Xaw3d is a widget set based on the X Toolkit Intrinsics (Xt) Library.

libxc

Homepage:
Spack package:
Versions:
5.1.7, 5.1.5, 5.1.3, 5.1.2, 5.1.0, 5.0.0, 4.3.4, 4.3.2, 4.2.3, 3.0.0, 2.2.2, 2.2.1
Build Dependencies:
cuda, gnuconfig, perl
Link Dependencies:
cuda
Description:
Libxc is a library of exchange-correlation functionals for density- functional theory.

libxcb

Homepage:
Spack package:
Versions:
1.14, 1.13, 1.12, 1.11.1, 1.11
Build Dependencies:
gnuconfig, libpthread-stubs, libxau, libxdmcp, xcb-proto, pkgconfig, util-macros
Link Dependencies:
libpthread-stubs, libxau, libxdmcp, xcb-proto
Description:
The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.

libxcomposite

Homepage:
Spack package:
Versions:
0.4.4
Build Dependencies:
gnuconfig, libx11, libxfixes, fixesproto, compositeproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxfixes, fixesproto, compositeproto
Description:
libXcomposite - client library for the Composite extension to the X11 protocol.

libxcrypt

Homepage:
Spack package:
Versions:
4.4.17, 4.4.16, 4.4.15
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
libxcrypt is a modern library for one-way hashing of passwords.

libxcursor

Homepage:
Spack package:
Versions:
1.1.14
Build Dependencies:
gnuconfig, libxrender, libxfixes, libx11, fixesproto, pkgconfig, util-macros
Link Dependencies:
libxrender, libxfixes, libx11, fixesproto
Description:
libXcursor - X Window System Cursor management library.

libxdamage

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libxfixes, libx11, damageproto, fixesproto, xextproto, pkgconfig, util-macros
Link Dependencies:
libxfixes, libx11, damageproto, fixesproto, xextproto
Description:
This package contains the library for the X Damage extension.

libxdmcp

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, xproto, pkgconfig, util-macros, libbsd
Link Dependencies:
xproto, libbsd
Description:
libXdmcp - X Display Manager Control Protocol library.

libxevie

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxext, xproto, xextproto, evieext, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xproto, xextproto, evieext
Description:
Xevie - X Event Interception Extension (XEvIE).

libxext

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
gnuconfig, libx11, xproto, xextproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto, xextproto
Description:
libXext - library for common extensions to the X11 protocol.

libxfixes

Homepage:
Spack package:
Versions:
5.0.2
Build Dependencies:
gnuconfig, libx11, xproto, fixesproto, xextproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto, fixesproto, xextproto
Description:
This package contains header files and documentation for the XFIXES extension. Library and server implementations are separate.

libxfont

Homepage:
Spack package:
Versions:
1.5.2
Build Dependencies:
gnuconfig, libfontenc, freetype, xtrans, xproto, fontsproto, pkgconfig, util-macros
Link Dependencies:
libfontenc, freetype, xtrans, xproto, fontsproto
Description:
libXfont provides the core of the legacy X11 font system, handling the index files (fonts.dir, fonts.alias, fonts.scale), the various font file formats, and rasterizing them. It is used by the X servers, the X Font Server (xfs), and some font utilities (bdftopcf for instance), but should not be used by normal X11 clients. X11 clients access fonts via either the new API's in libXft, or the legacy API's in libX11.

libxfont2

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
gnuconfig, libfontenc, freetype, xtrans, xproto, fontsproto, pkgconfig, util-macros
Link Dependencies:
libfontenc, freetype, xtrans, xproto, fontsproto
Description:
libXfont provides the core of the legacy X11 font system, handling the index files (fonts.dir, fonts.alias, fonts.scale), the various font file formats, and rasterizing them. It is used by the X servers, the X Font Server (xfs), and some font utilities (bdftopcf for instance), but should not be used by normal X11 clients. X11 clients access fonts via either the new API's in libXft, or the legacy API's in libX11.

libxfontcache

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, fontcacheproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, fontcacheproto
Description:
Xfontcache - X-TrueType font cache extension client library.

libxft

Homepage:
Spack package:
Versions:
2.3.2
Build Dependencies:
gnuconfig, freetype, fontconfig, libx11, libxrender, pkgconfig, util-macros
Link Dependencies:
freetype, fontconfig, libx11, libxrender
Description:
X FreeType library. Xft version 2.1 was the first stand alone release of Xft, a library that connects X applications with the FreeType font rasterization library. Xft uses fontconfig to locate fonts so it has no configuration files.

libxi

Homepage:
Spack package:
Versions:
1.7.6
Build Dependencies:
gnuconfig, pkgconfig, libx11, libxext, libxfixes, fixesproto, xproto, xextproto, inputproto
Link Dependencies:
libx11, libxext, libxfixes, fixesproto, xproto, xextproto, inputproto
Description:
libXi - library for the X Input Extension.

libxinerama

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, xineramaproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, xineramaproto
Description:
libXinerama - API for Xinerama extension to X11 Protocol.

libxkbcommon

Homepage:
Spack package:
Versions:
1.4.0, 0.8.2, 0.8.0, 0.7.1
Build Dependencies:
meson, ninja, pkgconfig, bison, util-macros, xkbdata, libxcb, libxml2, wayland, wayland-protocols
Link Dependencies:
util-macros, xkbdata, libxcb, libxml2, wayland, wayland-protocols
Description:
xkbcommon is a library to handle keyboard descriptions, including loading them from disk, parsing them and handling their state. It's mainly meant for client toolkits, window systems, and other system applications.

libxkbfile

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, libx11, kbproto, pkgconfig, util-macros
Link Dependencies:
libx11, kbproto
Description:
XKB file handling routines.

libxkbui

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
gnuconfig, libx11, libxt, libxkbfile, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libxkbfile
Description:
X.org libxkbui library.

libxml2

Homepage:
Spack package:
Versions:
2.9.13, 2.9.12, 2.9.11, 2.9.10, 2.9.9, 2.9.8, 2.9.4, 2.9.2, 2.7.8
Build Dependencies:
gnuconfig, pkgconfig, iconv, zlib, xz, python
Link Dependencies:
iconv, zlib, xz, python
Run Dependencies:
python
Description:
Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.

libxmu

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, libxt, libxext, libx11, xextproto, pkgconfig, util-macros
Link Dependencies:
libxt, libxext, libx11, xextproto
Description:
This library contains miscellaneous utilities and is not part of the Xlib standard. It contains routines which only use public interfaces so that it may be layered on top of any proprietary implementation of Xlib or Xt.

libxp

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxext, libxau, xextproto, printproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxau, xextproto, printproto
Description:
libXp - X Print Client Library.

libxpm

Homepage:
Spack package:
Versions:
3.5.12, 3.5.11, 3.5.10, 3.5.9, 3.5.8, 3.5.7
Build Dependencies:
gnuconfig, gettext, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
gettext, libx11, xproto
Description:
libXpm - X Pixmap (XPM) image file format library.

libxpresent

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
gnuconfig, xproto, presentproto, xextproto, fixesproto, randrproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxfixes, libxrandr, xproto, presentproto, xextproto, fixesproto, randrproto
Description:
This package contains header files and documentation for the Present extension. Library and server implementations are separate.

libxprintapputil

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, libxp, libxprintutil, libxau, printproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxp, libxprintutil, libxau, printproto
Description:
Xprint application utility routines.

libxprintutil

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, libxp, libxt, libxau, printproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxp, libxt, libxau, printproto
Description:
Xprint application utility routines.

libxrandr

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
gnuconfig, libx11, libxext, libxrender, randrproto, xextproto, renderproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxrender, randrproto, xextproto, renderproto
Description:
libXrandr - X Resize, Rotate and Reflection extension library.

libxrender

Homepage:
Spack package:
Versions:
0.9.10, 0.9.9
Build Dependencies:
gnuconfig, libx11, renderproto, pkgconfig, util-macros
Link Dependencies:
libx11, renderproto
Description:
libXrender - library for the Render Extension to the X11 protocol.

libxres

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, resourceproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, resourceproto
Description:
libXRes - X-Resource extension client library.

libxscrnsaver

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, scrnsaverproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, scrnsaverproto
Description:
XScreenSaver - X11 Screen Saver extension client library

libxshmfence

Homepage:
Spack package:
Versions:
1.3, 1.2
Build Dependencies:
gnuconfig, xproto, pkgconfig, util-macros
Link Dependencies:
xproto
Description:
libxshmfence - Shared memory 'SyncFence' synchronization primitive. This library offers a CPU-based synchronization primitive compatible with the X SyncFence objects that can be shared between processes using file descriptor passing.

libxslt

Homepage:
Spack package:
Versions:
1.1.33, 1.1.32, 1.1.29, 1.1.28, 1.1.26
Build Dependencies:
gnuconfig, pkgconfig, iconv, libxml2, xz, zlib, libgcrypt, python
Link Dependencies:
iconv, libxml2, xz, zlib, libgcrypt, python
Run Dependencies:
python
Description:
Libxslt is the XSLT C library developed for the GNOME project. XSLT itself is a an XML language to define transformation for XML. Libxslt is based on libxml2 the XML C library developed for the GNOME project. It also implements most of the EXSLT set of processor-portable extensions functions and some of Saxon's evaluate and expressions extensions.

libxsmm

Homepage:
Spack package:
Versions:
master, 1.17, 1.16.3, 1.16.2, 1.16.1, 1.16, 1.15, 1.14, 1.13, 1.12.1, 1.12, 1.11, 1.10, 1.9, 1.8.3, 1.8.2, 1.8.1, 1.8, 1.7.1, 1.7, 1.6.6, 1.6.5, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.2, 1.5.1, 1.5, 1.4.4, 1.4.3, 1.4.2, 1.4.1, 1.4
Build Dependencies:
python
Description:
Library for specialized dense and sparse matrix operations, and deep learning primitives.

libxstream

Homepage:
Spack package:
Versions:
0.9.0
Description:
LIBXSTREAM is a library to work with streams, events, and code regions that are able to run asynchronous while preserving the usual stream conditions.

libxt

Homepage:
Spack package:
Versions:
1.1.5
Build Dependencies:
gnuconfig, libsm, libice, libx11, xproto, kbproto, pkgconfig, util-macros
Link Dependencies:
libsm, libice, libx11, xproto, kbproto
Description:
libXt - X Toolkit Intrinsics library.

libxtrap

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, libxt, libxext, trapproto, xextproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libxext, trapproto, xextproto
Description:
libXTrap is the Xlib-based client API for the DEC-XTRAP extension. XTrap was a proposed standard extension for X11R5 which facilitated the capturing of server protocol and synthesizing core input events. Digital participated in the X Consortium's xtest working group which chose to evolve XTrap functionality into the XTEST & RECORD extensions for X11R6. As X11R6 was released in 1994, XTrap has now been deprecated for over 15 years, and uses of it should be quite rare.

libxtst

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, libx11, libxext, libxi, recordproto, xextproto, inputproto, fixesproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxi, recordproto, xextproto, inputproto, fixesproto
Description:
libXtst provides the Xlib-based client API for the XTEST & RECORD extensions. The XTEST extension is a minimal set of client and server extensions required to completely test the X11 server with no user intervention. This extension is not intended to support general journaling and playback of user actions. The RECORD extension supports the recording and reporting of all core X protocol and arbitrary X extension protocol.

libxv

Homepage:
Spack package:
Versions:
1.0.10
Build Dependencies:
gnuconfig, libx11, libxext, xextproto, videoproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xextproto, videoproto
Description:
libXv - library for the X Video (Xv) extension to the X Window System.

libxvmc

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, libx11, libxext, libxv, xextproto, videoproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxv, xextproto, videoproto
Description:
X.org libXvMC library.

libxxf86dga

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libx11, libxext, xproto, xextproto, xf86dgaproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xproto, xextproto, xf86dgaproto
Description:
libXxf86dga - Client library for the XFree86-DGA extension.

libxxf86misc

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxext, xproto, xextproto, xf86miscproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xproto, xextproto, xf86miscproto
Description:
libXxf86misc - Extension library for the XFree86-Misc X extension.

libxxf86vm

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libx11, libxext, xproto, xextproto, xf86vidmodeproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, xproto, xextproto, xf86vidmodeproto
Description:
libXxf86vm - Extension library for the XFree86-VidMode X extension.

libyaml

Homepage:
Spack package:
Versions:
master, 0.2.5, 0.2.4, 0.2.3, 0.2.2, 0.2.1, 0.1.7, 0.1.6, 0.1.5, 0.1.4, 0.1.3, 0.1.2, 0.1.1
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4
Link Dependencies:
automake, autoconf, libtool, m4
Description:
A C library for parsing and emitting YAML.

libyogrt

Homepage:
Spack package:
Versions:
1.27, 1.24, 1.23, 1.22, 1.21, 1.20-7, 1.20-6, 1.20-5, 1.20-4, 1.20-3, 1.20-2
Build Dependencies:
gnuconfig, flux-core, lsf, slurm
Link Dependencies:
flux-core, lsf, slurm
Description:
Your One Get Remaining Time Library.

libzip

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
libzip is a C library for reading, creating, and modifying zip archives.

libzmq

Homepage:
Spack package:
Versions:
master, 4.3.4, 4.3.3, 4.3.2, 4.3.1, 4.3.0, 4.2.5, 4.2.2, 4.1.4, 4.1.2, 4.1.1, 4.0.7, 4.0.6, 4.0.5
Build Dependencies:
gnuconfig, libsodium, autoconf, automake, libtool, pkgconfig, docbook-xml, docbook-xsl, libbsd
Link Dependencies:
libsodium, libbsd
Description:
The ZMQ networking/concurrency library and core API

liggghts

Homepage:
Spack package:
Versions:
3.8.0
Build Dependencies:
vtk, mpi, jpeg, zlib
Link Dependencies:
vtk, mpi, jpeg, zlib
Description:
Discrete element method particle simulation.

lighttpd

Homepage:
Spack package:
Versions:
1.4.55, 1.4.54, 1.4.53, 1.4.52, 1.4.51, 1.4.50, 1.4.49
Build Dependencies:
cmake, pcre
Link Dependencies:
pcre
Description:
a secure, fast, compliant and very flexible web-server

ligra

Homepage:
Spack package:
Versions:
1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Build Dependencies:
mkl
Link Dependencies:
mkl
Description:
A Lightweight Graph Processing Framework for Shared Memory

likwid

Homepage:
Spack package:
Versions:
5.2.1, 5.2.0, 5.1.1, 5.1.0, 5.0.2, 5.0.1, 5.0.0, 4.3.4, 4.3.3, 4.3.2, 4.3.1, 4.3.0
Build Dependencies:
lua, cuda, hwloc, perl
Link Dependencies:
lua, cuda, hwloc
Run Dependencies:
perl
Description:
Likwid is a simple to install and use toolsuite of command line applications for performance oriented programmers. It works for Intel and AMD processors on the Linux operating system. This version uses the perf_event backend which reduces the feature set but allows user installs. See https://github.com/RRZE- HPC/likwid/wiki/TutorialLikwidPerf#feature-limitations for information.

linkphase3

Homepage:
Spack package:
Versions:
2017-06-14
Description:
Haplotype reconstruction in pedigreed populations.

linktest

Homepage:
Spack package:
Versions:
1.2p1
Build Dependencies:
mpi, sionlib
Link Dependencies:
mpi, sionlib
Description:
Performance tool to generate communication matrix using parallel ping- pong benchmark

linsys-v

Homepage:
Spack package:
Versions:
alpha
Build Dependencies:
mpi
Link Dependencies:
mpi, blas, lapack, scalapack
Description:
LINSYS_V: Verified Solution of Linear Systems

linux-headers

Homepage:
Spack package:
Versions:
4.9.10
Description:
The Linux kernel headers.

linux-pam

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.1
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
Linux PAM (Pluggable Authentication Modules for Linux) project.

lis

Homepage:
Spack package:
Versions:
2.0.27
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Lis (Library of Iterative Solvers for linear systems, pronounced [lis]) is a parallel software library for solving discretized linear equations and eigenvalue problems that arise in the numerical solution of partial differential equations using iterative methods.

listres

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxaw, libxt, libxmu, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt, libxmu, xproto
Description:
The listres program generates a list of X resources for a widget in an X client written using a toolkit based on libXt.

lizard

Homepage:
Spack package:
Versions:
develop, 1.0
Description:
Lizard (formerly LZ5) is an efficient compressor with very fast decompression. It achieves compression ratio that is comparable to zip/zlib and zstd/brotli (at low and medium compression levels) at decompression speed of 1000 MB/s and faster.

lksctp-tools

Homepage:
Spack package:
Versions:
1.0.18
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
A Linux SCTP helper library

llvm

Homepage:
Spack package:
Versions:
main, 14.0.2, 14.0.1, 14.0.0, 13.0.1, 13.0.0, 12.0.1, 12.0.0, 11.1.0, 11.0.1, 11.0.0, 10.0.1, 10.0.0, 9.0.1, 9.0.0, 8.0.1, 8.0.0, 7.1.0, 7.0.1, 6.0.1, 6.0.0, 5.0.2, 5.0.1, 5.0.0, 4.0.1, 4.0.0, 3.9.1, 3.9.0, 3.8.1, 3.8.0, 3.7.1, 3.7.0, 3.6.2, 3.5.1
Build Dependencies:
cuda, cmake, python, ninja, pkgconfig, z3, perl-data-dumper, hwloc, libelf, libffi, ncurses, zlib, libxml2, swig, libedit, py-six, binutils, gmp, isl
Link Dependencies:
cuda, python, z3, hwloc, libelf, libffi, ncurses, zlib, libxml2, swig, libedit, py-six, binutils, gmp, isl
Run Dependencies:
python
Description:
The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name "LLVM" itself is not an acronym; it is the full name of the project.

llvm-amdgpu

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, python, perl-data-dumper, hwloc
Link Dependencies:
z3, zlib, ncurses, hwloc, elf
Description:
Toolkit for the construction of highly optimized compilers, optimizers, and run-time environments.

llvm-doe

Homepage:
Spack package:
Versions:
develop.clacc, 13.0.0, upstream, pragma-omp-tile, pragma-clang-loop, doe, bolt
Build Dependencies:
cuda, cmake, python, ninja, pkgconfig, z3, perl-data-dumper, hwloc, libelf, libffi, ncurses, swig, libedit, py-six, binutils
Link Dependencies:
cuda, python, z3, hwloc, libelf, libffi, ncurses, swig, libedit, py-six, binutils
Run Dependencies:
python
Description:
This package provides a collection of the experimental LLVM projects done by the US DOE research and development teams.

llvm-openmp

Homepage:
Spack package:
Versions:
12.0.1, 9.0.0, 8.0.0
Build Dependencies:
cmake
Description:
The OpenMP subproject of LLVM contains the components required to build an executable OpenMP program that are outside the compiler itself.

llvm-openmp-ompt

Homepage:
Spack package:
Versions:
3.9.2b2, 3.9.2b, tr6_forwards
Build Dependencies:
cmake, llvm, ninja, perl, elf, libffi
Link Dependencies:
llvm, elf, libffi
Description:
The OpenMP subproject provides an OpenMP runtime for use with the OpenMP implementation in Clang. This branch includes experimental changes for OMPT, the OpenMP Tools interface

lm-sensors

Homepage:
Spack package:
Versions:
3-6-0, 3-5-0, 3-4-0, 3-3-5, 3-3-4, 3-3-3, 3-3-2, 3-3-1, 3-3-0, 3-2-0, 3-1-2, 3-1-1
Build Dependencies:
bison, flex
Run Dependencies:
perl
Description:
The lm-sensors package provides user-space support for the hardware monitoring drivers in Linux.

lmbench

Homepage:
Spack package:
Versions:
master
Build Dependencies:
libtirpc
Link Dependencies:
libtirpc
Description:
lmbench is a suite of simple, portable, ANSI/C microbenchmarks for UNIX/POSIX. In general, it measures two key features: latency and bandwidth. lmbench is intended to give system developers insight into basic costs of key operations.

lmdb

Homepage:
Spack package:
Versions:
0.9.29, 0.9.24, 0.9.22, 0.9.21, 0.9.16
Description:
Symas LMDB is an extraordinarily fast, memory-efficient database we developed for the Symas OpenLDAP Project. With memory-mapped files, it has the read performance of a pure in-memory database while retaining the persistence of standard disk-based databases.

lmod

Homepage:
Spack package:
Versions:
8.7.2, 8.6.18, 8.6.5, 8.5.29, 8.5.27, 8.5.6, 8.3, 8.2.10, 8.1.5, 8.0.9, 7.8.15, 7.8.1, 7.8, 7.7.29, 7.7.13, 7.7, 7.6.14, 7.4.11, 7.4.10, 7.4.9, 7.4.8, 7.4.5, 7.4.1, 7.3, 6.4.5, 6.4.1, 6.3.7
Build Dependencies:
gnuconfig, lua, lua-luaposix, lua-luafilesystem, tcl
Link Dependencies:
lua, tcl
Run Dependencies:
lua-luaposix, lua-luafilesystem, tcl
Description:
Lmod is a Lua based module system that easily handles the MODULEPATH Hierarchical problem. Environment Modules provide a convenient way to dynamically change the users' environment through modulefiles. This includes easily adding or removing directories to the PATH environment variable. Modulefiles for Library packages provide environment variables that specify where the library and header files can be found.

lndir

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, xproto, pkgconfig
Link Dependencies:
xproto
Description:
lndir - create a shadow directory of symbolic links to another directory tree.

log4c

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
gnuconfig, expat
Link Dependencies:
expat
Description:
Library for writing log messages from C programs

log4cplus

Homepage:
Spack package:
Versions:
2.0.7, 2.0.1, 1.2.1
Build Dependencies:
cmake
Description:
log4cplus is a simple to use C++ logging API providing thread-safe, flexible, and arbitrarily granular control over log management and configuration.

log4cpp

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig
Description:
Log4cpp is library of C++ classes for flexible logging to files, syslog, IDSA and other destinations. It is modeled after the Log4j Java library, staying as close to their API as is reasonable.

log4cxx

Homepage:
Spack package:
Versions:
0.12.1, 0.12.0
Build Dependencies:
cmake, apr-util, apr, boost, zlib, zip
Link Dependencies:
apr-util, apr, boost, zlib, zip
Description:
A C++ port of Log4j

logrotate

Homepage:
Spack package:
Versions:
3.17.0, 3.16.0, 3.15.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, popt, acl
Link Dependencies:
popt, acl
Description:
The logrotate utility is designed to simplify the administration of log files on a system which generates a lot of log files.

logstash

Homepage:
Spack package:
Versions:
6.6.0
Description:
Logstash is part of the Elastic Stack along with Beats, Elasticsearch and Kibana. Logstash is a server-side data processing pipeline that ingests data from a multitude of sources simultaneously, transforms it, and then sends it to your favorite "stash.

loki

Homepage:
Spack package:
Versions:
0.1.7
Description:
Loki is a C++ library of designs, containing flexible implementations of common design patterns and idioms.

looptools

Homepage:
Spack package:
Versions:
2.15, 2.8
Build Dependencies:
gnuconfig
Description:
LoopTools is a package for evaluation of scalar and tensor one-loop integrals based on the FF package by G.J. van Oldenborgh. It features an easy Fortran, C++, and Mathematica interface to the scalar one-loop functions of FF and in addition provides the 2-, 3-, and 4-point tensor coefficient functions.

lordec

Homepage:
Spack package:
Versions:
0.9, 0.8
Build Dependencies:
boost, gatb-core, zlib
Link Dependencies:
boost, gatb-core, zlib
Run Dependencies:
gatb-core
Description:
LoRDEC is a program to correct sequencing errors in long reads from 3rd generation sequencing with high error rate, and is especially intended for PacBio reads.

lorene

Homepage:
Spack package:
Versions:
2021.4.22
Build Dependencies:
blas, fftw, gsl, lapack, pgplot
Link Dependencies:
blas, fftw, gsl, lapack, pgplot
Description:
LORENE: Langage Objet pour la RElativite NumeriquE. LORENE is a set of C++ classes to solve various problems arising in numerical relativity, and more generally in computational astrophysics. It provides tools to solve partial differential equations by means of multi-domain spectral methods.

lp-solve

Homepage:
Spack package:
Versions:
5.5.2.11
Description:
lp_solve is a Mixed Integer Linear Programming (MILP) solver.

lrslib

Homepage:
Spack package:
Versions:
6.2, 6.1, 6.0, 5.1, 4.3
Build Dependencies:
gmp, libtool
Link Dependencies:
gmp
Description:
lrslib Ver 6.2 is a self-contained ANSI C implementation of the reverse search algorithm for vertex enumeration/convex hull problems and comes with a choice of three arithmetic packages

lrzip

Homepage:
Spack package:
Versions:
master, 0.630, 0.621, 0.616, 0.615
Build Dependencies:
lzo, zlib, bzip2
Link Dependencies:
lzo, zlib, bzip2
Description:
A compression utility that excels at compressing large files (usually > 10-50 MB). Larger files and/or more free RAM means that the utility will be able to more effectively compress your files (ie: faster / smaller size), especially if the filesize(s) exceed 100 MB. You can either choose to optimise for speed (fast compression / decompression) or size, but not both.

lsf

Homepage:
Spack package:
Versions:
10.1
Description:
IBM Platform LSF is a batch scheduler for HPC environments

lshw

Homepage:
Spack package:
Versions:
02.18, 02.17, 02.16, 02.15
Description:
lshw is a small tool to provide detailed information on the hardware configuration of the machine. It can report exact memory configuration, firmware version, mainboard configuration, CPU version and speed, cache configuration, bus speed, etc. on DMI-capable x86 or EFI (IA-64) systems and on some ARM and PowerPC machines.

lsof

Homepage:
Spack package:
Versions:
4.91, 4.90, 4.89
Description:
Lsof displays information about files open to Unix processes.

lsscsi

Homepage:
Spack package:
Versions:
0.31, 0.30
Build Dependencies:
gnuconfig
Description:
Uses information provided by the sysfs pseudo file system in Linux kernel 2.6 series to list SCSI devices or all SCSI hosts. Includes a 'classic'option to mimic the output of 'cat /proc/scsi/scsi' that has been widely used prior to the lk 2.6 series.

ltp

Homepage:
Spack package:
Versions:
20190930, 20190517
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Ltp is a joint project started by SGI, developed and maintained by IBM, Cisco, Fujitsu, SUSE, Red Hat and others, that has a goal to deliver test suites to the open source community that validate the reliability, robustness,and stability of Linux. The LTP testsuite contains a collection of tools for testing the Linux kernel and related features.

ltr-retriever

Homepage:
Spack package:
Versions:
2.8.7
Run Dependencies:
perl, blast-plus, hmmer, cdhit, repeatmasker
Description:
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons.

ltrace

Homepage:
Spack package:
Versions:
0.7.3
Build Dependencies:
gnuconfig
Description:
Ltrace intercepts and records dynamic library calls which are called by an executed process and the signals received by that process. It can also intercept and print the system calls executed by the program.

lua

Homepage:
Spack package:
Versions:
5.3.5, 5.3.4, 5.3.2, 5.3.1, 5.3.0, 5.2.4, 5.2.3, 5.2.2, 5.2.1, 5.2.0, 5.1.5, 5.1.4, 5.1.3
Build Dependencies:
ncurses, readline
Link Dependencies:
ncurses, readline
Run Dependencies:
unzip, curl, wget
Description:
The Lua programming language interpreter and library.

lua-bit32

Homepage:
Spack package:
Versions:
5.3.5.1-1
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Link Dependencies:
lua-lang, lua-luajit, luajit, lua-luajit-openresty
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
Lua 5.2 bit operations for Lua 5.1

lua-bitlib

Homepage:
Spack package:
Versions:
23-2
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Link Dependencies:
lua-lang, lua-luajit, luajit, lua-luajit-openresty
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
Lua-jit-like bitwise operations for lua

lua-ffi

Homepage:
Spack package:
Versions:
0.0.1.fakever
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Link Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
luajit FFI for interpreted lua

lua-lpeg

Homepage:
Spack package:
Versions:
1.0.2-1, 0.12-1
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Link Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
pattern-matching for lua

lua-luafilesystem

Homepage:
Spack package:
Versions:
1_8_0, 1_7_0_2, 1_6_3
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty
Link Dependencies:
lua-lang, lua-luajit, luajit, lua-luajit-openresty
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
LuaFileSystem is a Lua library developed to complement the set of functions related to file systems offered by the standard Lua distribution. LuaFileSystem offers a portable way to access the underlying directory structure and file attributes. LuaFileSystem is free software and uses the same license as Lua 5.1

lua-luajit

Homepage:
Spack package:
Versions:
2.1.0-beta3, 2.0.5, 2.0.4
Run Dependencies:
unzip, curl, wget
Description:
Flast flexible JITed lua

lua-luajit-openresty

Homepage:
Spack package:
Versions:
2.1-20220111
Run Dependencies:
unzip, curl, wget
Description:
Flast flexible JITed lua - OpenResty maintained fork

lua-luaposix

Homepage:
Spack package:
Versions:
35.0, 33.4.0, 33.2.1
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty, lua-bit32
Link Dependencies:
lua-lang, lua-luajit, luajit, lua-luajit-openresty, lua-bit32
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
Lua posix bindings, including ncurses

lua-mpack

Homepage:
Spack package:
Versions:
1.0.9, 1.0.8, 1.0.7, 1.0.6-0
Build Dependencies:
lua-lang, lua, lua-luajit, luajit, lua-luajit-openresty, msgpack-c
Link Dependencies:
lua-lang, lua-luajit, luajit, lua-luajit-openresty, msgpack-c
Run Dependencies:
lua, lua-luajit, lua-luajit-openresty
Description:
lua bindings to libmpack

lua-sol2

Homepage:
Spack package:
Versions:
develop, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.0.3, 3.0.2
Build Dependencies:
cmake
Link Dependencies:
lua
Run Dependencies:
lua
Description:
sol2 is a C++ library binding to Lua.

lucene

Homepage:
Spack package:
Versions:
8.3.1, 8.3.0, 8.2.0, 8.1.1
Run Dependencies:
java
Description:
Apache Lucene is a high-performance, full featured text search engine library written in Java.

luit

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, libfontenc, libx11, pkgconfig, util-macros
Link Dependencies:
libfontenc, libx11
Description:
Luit is a filter that can be run between an arbitrary application and a UTF-8 terminal emulator such as xterm. It will convert application output from the locale's encoding into UTF-8, and convert terminal input from UTF-8 into the locale's encoding.

lulesh

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
mpi, silo, hdf5
Link Dependencies:
mpi, silo, hdf5
Description:
LULESH is a highly simplified application, hard-coded to only style typical in scientific C or C++ based applications. Hard code to only solve a Sedov blast problem with analytic answer

lumpy-sv

Homepage:
Spack package:
Versions:
0.2.13
Build Dependencies:
htslib
Link Dependencies:
htslib
Description:
A probabilistic framework for structural variant discovery.

lustre

Homepage:
Spack package:
Versions:
2.12
Description:
Lustre is a type of parallel distributed file system, generally used for large-scale cluster computing.

lvarray

Homepage:
Spack package:
Versions:
develop, main, 0.2.2, 0.2.1, 0.1.0
Build Dependencies:
cuda, cmake, blt, camp, raja, umpire, chai, caliper, python, py-numpy, py-scipy, doxygen, py-sphinx
Link Dependencies:
cuda, camp, raja, umpire, chai, caliper, python, py-numpy
Run Dependencies:
python, py-numpy, py-scipy
Description:
LvArray portable HPC containers.

lvm2

Homepage:
Spack package:
Versions:
2.03.14, 2.03.05, 2.03.04, 2.03.03, 2.03.02, 2.03.01, 2.03.00
Build Dependencies:
gnuconfig, libaio, pkgconfig
Link Dependencies:
libaio
Description:
LVM2 is the userspace toolset that provides logical volume management facilities on linux. To use it you need 3 things: device-mapper in your kernel, the userspace device-mapper support library (libdevmapper) and the userspace LVM2 tools (dmsetup). These userspace components, and associated header files, are provided by this package. See http://sources.redhat.com/dm/ for additional information about the device-mapper kernel and userspace components.

lwgrp

Homepage:
Spack package:
Versions:
main, 1.0.5, 1.0.4, 1.0.3, 1.0.2
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Thie light-weight group library provides process group representations using O(log N) space and time.

lwm2

Homepage:
Spack package:
Versions:
torus
Build Dependencies:
gnuconfig, papi, mpi
Link Dependencies:
papi, mpi
Description:
LWM2: Light Weight Measurement Module. This is a PMPI module that can collect a number of time-sliced MPI and POSIX I/O measurements from a program.

lwtnn

Homepage:
Spack package:
Versions:
2.13, 2.12.1, 2.10
Build Dependencies:
cmake, boost, eigen
Link Dependencies:
boost, eigen
Description:
Lightweight Trained Neural Network.

lxc

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, 4.0.0, 3.2.1, 3.2.0, 3.1.0, 3.0.4, 3.0.3, 2.0.11, 2.0.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
LXC is the well-known and heavily tested low-level Linux container runtime. It is in active development since 2008 and has proven itself in critical production environments world-wide. Some of its core contributors are the same people that helped to implement various well- known containerization features inside the Linux kernel.

lynx

Homepage:
Spack package:
Versions:
2.8.9.1
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
Lynx is the text web browser.

lz4

Homepage:
Spack package:
Versions:
1.9.3, 1.9.2, 1.9.0, 1.8.3, 1.8.1.2, 1.7.5, 1.3.1
Test Dependencies:
valgrind
Description:
LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.

lzma

Homepage:
Spack package:
Versions:
4.32.7
Build Dependencies:
gnuconfig
Description:
LZMA Utils are legacy data compression software with high compression ratio. LZMA Utils are no longer developed, although critical bugs may be fixed as long as fixing them doesn't require huge changes to the code. Users of LZMA Utils should move to XZ Utils. XZ Utils support the legacy .lzma format used by LZMA Utils, and can also emulate the command line tools of LZMA Utils. This should make transition from LZMA Utils to XZ Utils relatively easy.

lzo

Homepage:
Spack package:
Versions:
2.10, 2.09, 2.08, 2.07, 2.06, 2.05
Build Dependencies:
gnuconfig
Description:
Real-time data compression library

lzop

Homepage:
Spack package:
Versions:
1.04, 1.03, 1.01
Build Dependencies:
cmake, pkgconfig, lzo
Link Dependencies:
lzo
Description:
lzop is a file compressor which is very similar to gzip. lzop uses the LZO data compression library for compression services, and its main advantages over gzip are much higher compression and decompression speed (at the cost of some compression ratio).

m4

Homepage:
Spack package:
Versions:
1.4.19, 1.4.18, 1.4.17
Build Dependencies:
gnuconfig, libsigsegv
Link Dependencies:
libsigsegv
Description:
GNU M4 is an implementation of the traditional Unix macro processor.

macfuse

Homepage:
Spack package:
Versions:
4.1.2
Description:
FUSE for macOS allows you to extend macOS via third party file systems.

macsio

Homepage:
Spack package:
Versions:
develop, 1.1, 1.0
Build Dependencies:
cmake, json-cwx, mpi, silo, hdf5, exodusii, typhonio, scr
Link Dependencies:
json-cwx, mpi, silo, hdf5, exodusii, typhonio, scr
Description:
A Multi-purpose, Application-Centric, Scalable I/O Proxy Application.

mad-numdiff

Homepage:
Spack package:
Versions:
develop, 20150724
Build Dependencies:
cmake
Description:
compare unformatted text files with numerical content

madgraph5amc

Homepage:
Spack package:
Versions:
2.8.1, 2.8.0, 2.7.3.py3, 2.7.3.py2
Build Dependencies:
syscalc, gosam-contrib, collier, lhapdf, fastjet, py-six, python, libtirpc
Link Dependencies:
syscalc, gosam-contrib, collier, lhapdf, fastjet, libtirpc
Run Dependencies:
py-six, python
Description:
MadGraph5_aMC@NLO is a framework that aims at providing all the elements necessary for SM and BSM phenomenology, such as the computations of cross sections, the generation of hard events and their matching with event generators, and the use of a variety of tools relevant to event manipulation and analysis.

madx

Homepage:
Spack package:
Versions:
5.08.01, 5.08.00, 5.07.00
Build Dependencies:
cmake, libx11, zlib
Link Dependencies:
libx11, zlib
Description:
MAD-X (Methodical Accelerator Design) is an application for designing particle accelerators.

mafft

Homepage:
Spack package:
Versions:
7.481, 7.475, 7.453, 7.407, 7.221
Description:
MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc.

magics

Homepage:
Spack package:
Versions:
4.9.3, 4.4.0, 4.3.3, 4.3.1, 4.3.0, 4.2.6, 4.2.4, 4.1.0, 2.34.3, 2.34.1, 2.33.0, 2.32.0, 2.31.0, 2.29.6, 2.29.4, 2.29.0
Build Dependencies:
cmake, pkgconfig, python, perl, perl-xml-parser, proj, boost, expat, zlib, libpng, eccodes, grib-api, netcdf-cxx, pango, libemos, qt, py-numpy, swig, py-jinja2
Link Dependencies:
python, proj, boost, expat, zlib, libpng, eccodes, grib-api, netcdf-cxx, pango, libemos, qt
Run Dependencies:
python, py-numpy
Description:
Magics is the latest generation of the ECMWF's Meteorological plotting software MAGICS. Although completely redesigned in C++, it is intended to be as backwards-compatible as possible with the Fortran interface.

magma

Homepage:
Spack package:
Versions:
master, 2.6.2, 2.6.1, 2.6.0, 2.5.4, 2.5.3, 2.5.2, 2.5.1, 2.5.0, 2.4.0, 2.3.0, 2.2.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blas, lapack, hipblas, hipsparse
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, blas, lapack, hipblas, hipsparse
Description:
The MAGMA project aims to develop a dense linear algebra library similar to LAPACK but for heterogeneous/hybrid architectures, starting with current "Multicore+GPU" systems.

mahout

Homepage:
Spack package:
Versions:
0.13.0, 0.12.2, 0.12.1, 0.12.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
The Apache Mahout project's goal is to build an environment for quickly creating scalable performant machine learning applications.

makedepend

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, xproto, pkgconfig
Link Dependencies:
xproto
Description:
makedepend - create dependencies in makefiles.

maker

Homepage:
Spack package:
Versions:
3.01.03, 2.31.10
Build Dependencies:
perl, perl-module-build, perl-dbi, perl-dbd-mysql, perl-dbd-pg, perl-dbd-sqlite, perl-forks, perl-file-which, perl-perl-unsafe-signals, perl-bit-vector, perl-inline-c, perl-io-all, perl-io-prompt, perl-bioperl, blast-plus, snap-korf, repeatmasker, exonerate, augustus, interproscan, mpi
Link Dependencies:
blast-plus, snap-korf, repeatmasker, exonerate, augustus, interproscan, mpi
Run Dependencies:
perl, perl-dbi, perl-dbd-mysql, perl-dbd-pg, perl-dbd-sqlite, perl-forks, perl-file-which, perl-perl-unsafe-signals, perl-bit-vector, perl-inline-c, perl-io-all, perl-io-prompt, perl-bioperl
Description:
MAKER is a portable and easily configurable genome annotation pipeline. It's purpose is to allow smaller eukaryotic and prokaryotic genomeprojects to independently annotate their genomes and to create genome databases. MAKER identifies repeats, aligns ESTs and proteins to a genome, produces ab-initio gene predictions and automatically synthesizes these data into gene annotations having evidence-based quality values. MAKER is also easily trainable: outputs of preliminary runs can be used to automatically retrain its gene prediction algorithm, producing higher quality gene-models on subsequent runs. MAKER's inputs are minimal and its ouputs can be directly loaded into a GMOD database. They can also be viewed in the Apollo genome browser; this feature of MAKER provides an easy means to annotate, view and edit individual contigs and BACs without the overhead of a database. MAKER should prove especially useful for emerging model organism projects with minimal bioinformatics expertise and computer resources. Note: MAKER requires registration. Fill out the form at http://yandell.topaz.genetics.utah.edu/cgi-bin/maker_license.cgi to get a download link. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

mallocmc

Homepage:
Spack package:
Versions:
develop, master, 2.2.0crp, 2.1.0crp, 2.0.1crp, 2.0.0crp, 1.0.2crp
Build Dependencies:
cmake
Link Dependencies:
boost, cuda
Description:
mallocMC: Memory Allocator for Many Core Architectures. This project provides a framework for fast memory managers on many core accelerators. Currently, it supports NVIDIA GPUs of compute capability sm_20 or higher through the ScatterAlloc algorithm. mallocMC is header-only, but requires a few other C++ libraries to be available.

maloc

Homepage:
Spack package:
Versions:
1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Build Dependencies:
gnuconfig, graphviz, doxygen
Description:
MALOC (Minimal Abstraction Layer for Object-oriented C) is a small, portable, abstract C environment library for object-oriented C programming. MALOC is used as the foundation layer for a number of scientific applications, including MC, SG, and APBS.

man-db

Homepage:
Spack package:
Versions:
2.10.1, 2.7.6.1
Build Dependencies:
gnuconfig, pkgconfig, gettext, libpipeline, flex, gdbm, groff, bzip2, xz
Link Dependencies:
gettext, libpipeline, flex, gdbm, groff, bzip2, xz
Run Dependencies:
groff, bzip2, xz
Description:
man-db is an implementation of the standard Unix documentation system accessed using the man command. It uses a Berkeley DB database in place of the traditional flat-text whatis databases.

manta

Homepage:
Spack package:
Versions:
1.6.0, 1.5.0, 1.4.0, 1.3.2, 1.3.1, 1.3.0
Build Dependencies:
cmake, python, zlib
Link Dependencies:
zlib
Run Dependencies:
python
Description:
Structural variant and indel caller for mapped sequencing data

mapnik

Homepage:
Spack package:
Versions:
3.0.23, 3.0.22
Build Dependencies:
gnuconfig, python, boost, icu4c, zlib, freetype, libxml2, harfbuzz, libpng, libjpeg, libtiff, proj, cairo, postgresql, gdal, sqlite, libwebp
Link Dependencies:
boost, icu4c, zlib, freetype, libxml2, harfbuzz, libpng, libjpeg, libtiff, proj, cairo, postgresql, gdal, sqlite, libwebp
Run Dependencies:
python, postgresql, gdal, sqlite
Description:
mapnik combines pixel-perfect image output with lightning-fast cartographic algorithms, and exposes interfaces in C++, Python, and Node

mapserver

Homepage:
Spack package:
Versions:
7.2.1
Build Dependencies:
cmake, libpng, freetype, jpeg, zlib, proj, curl, geos, libxml2, giflib, gdal, swig, python, postgresql, ruby, java, perl
Link Dependencies:
libpng, freetype, jpeg, zlib, proj, curl, geos, libxml2, giflib, gdal, python, postgresql, ruby, java, perl
Run Dependencies:
python
Description:
MapServer is an Open Source geographic data rendering engine written in C. Beyond browsing GIS data, MapServer allows you create "geographic image maps", that is, maps that can direct users to content

mapsplice2

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
bowtie
Link Dependencies:
bowtie, ncurses, samtools
Run Dependencies:
python
Description:
MapSplice is a software for mapping RNA-seq data to reference genome for splice junction discovery that depends only on reference genome, and not on any further annotations.

maq

Homepage:
Spack package:
Versions:
0.7.1, 0.5.0
Build Dependencies:
gnuconfig
Run Dependencies:
perl
Description:
Maq is a software that builds mapping assemblies from short reads generated by the next-generation sequencing machines.

margo

Homepage:
Spack package:
Versions:
master, 0.9.1, 0.9, 0.7.2, 0.7.1, 0.7, 0.6.4, 0.6.3, 0.6.2, 0.6.1, 0.6, 0.5.2, 0.5.1, 0.5, 0.4.7, 0.4.6, 0.4.5, 0.4.4, 0.4.3, 0.4.2
Build Dependencies:
gnuconfig, json-c, autoconf, m4, automake, libtool, pkgconfig, argobots, mercury
Link Dependencies:
json-c, argobots, mercury
Run Dependencies:
mercury
Description:
A library that provides Argobots bindings to the Mercury RPC implementation. This name will be deprecated soon; please use the mochi- margo package instead.

mariadb

Homepage:
Spack package:
Versions:
10.8.2, 10.4.12, 10.4.8, 10.4.7, 10.2.8, 10.1.23, 10.1.14, 5.5.56, 5.5.49
Build Dependencies:
cmake, boost, pkgconfig, bison, jemalloc, libaio, libedit, libevent, ncurses, zlib, curl, libxml2, lz4, libzmq, msgpack-c, openssl, krb5
Link Dependencies:
boost, jemalloc, libaio, libedit, libevent, ncurses, zlib, curl, libxml2, lz4, libzmq, msgpack-c, openssl, krb5
Description:
MariaDB Server is one of the most popular database servers in the world. MariaDB turns data into structured information in a wide array of applications, ranging from banking to websites. It is an enhanced, drop- in replacement for MySQL. MariaDB is used because it is fast, scalable and robust, with a rich ecosystem of storage engines, plugins and many other tools make it very versatile for a wide variety of use cases.

mariadb-c-client

Homepage:
Spack package:
Versions:
3.2.6, 3.1.13, 3.1.9, 3.1.6, 3.1.5, 3.1.4, 3.0.9, 3.0.8, 3.0.7, 3.0.6, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 2.3.7, 2.3.6, 2.3.5, 2.3.4, 2.3.3, 2.3.2, 2.3.1, 2.3.0, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.0
Build Dependencies:
cmake, curl, pcre, openssl, zlib, krb5
Link Dependencies:
curl, pcre, openssl, zlib, krb5
Description:
MariaDB turns data into structured information in a wide array of applications, ranging from banking to websites. It is an enhanced, drop- in replacement for MySQL. MariaDB is used because it is fast, scalable and robust, with a rich ecosystem of storage engines, plugins and many other tools make it very versatile for a wide variety of use cases. This package comprises only the standalone 'C Connector', which enables connections to MariaDB and MySQL servers.

mark

Homepage:
Spack package:
Versions:
1.0
Description:
Program MARK, developed and maintained by Gary White (Colorado State University) is the most flexible, widely used application currently available for parameter estimation using data from marked individuals. You will need to download the package yourself, unzip, rename it following the guide in http://www.phidot.org/software/mark/rmark/linux/ Step(1). Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

masa

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, autoconf, automake, libtool, swig, python, metaphysicl
Link Dependencies:
python, metaphysicl
Description:
MASA (Manufactured Analytical Solution Abstraction) is a library written in C++ (with C, python and Fortran90 interfaces) which provides a suite of manufactured solutions for the software verification of partial differential equation solvers in multiple dimensions.

mash

Homepage:
Spack package:
Versions:
2.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, capnproto, gsl
Link Dependencies:
capnproto, gsl
Description:
Fast genome and metagenome distance estimation using MinHash.

masurca

Homepage:
Spack package:
Versions:
4.0.9, 4.0.5, 4.0.1, 3.3.1, 3.2.9
Build Dependencies:
perl, boost, zlib
Link Dependencies:
boost, zlib
Run Dependencies:
perl
Description:
MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches.

mathematica

Homepage:
Spack package:
Versions:
12.2.0, 12.1.1, 12.0.0
Description:
Mathematica: high-powered computation with thousands of Wolfram Language functions, natural language input, real-world data, mobile support. Note: A manual download is required for Mathematica. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

matio

Homepage:
Spack package:
Versions:
1.5.17, 1.5.16, 1.5.15, 1.5.14, 1.5.13, 1.5.12, 1.5.11, 1.5.10, 1.5.9, 1.5.8, 1.5.7, 1.5.6, 1.5.5, 1.5.4, 1.5.3, 1.5.2
Build Dependencies:
gnuconfig, zlib, hdf5
Link Dependencies:
zlib, hdf5
Description:
matio is an C library for reading and writing Matlab MAT files

matlab

Homepage:
Spack package:
Versions:
R2019b, R2018b, R2016b, R2015b
Description:
MATLAB (MATrix LABoratory) is a multi-paradigm numerical computing environment and fourth-generation programming language. A proprietary programming language developed by MathWorks, MATLAB allows matrix manipulations, plotting of functions and data, implementation of algorithms, creation of user interfaces, and interfacing with programs written in other languages, including C, C++, C#, Java, Fortran and Python. Note: MATLAB is licensed software. You will need to create an account on the MathWorks homepage and download MATLAB yourself. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

maven

Homepage:
Spack package:
Versions:
3.8.4, 3.6.3, 3.6.2, 3.6.1, 3.6.0, 3.5.0, 3.3.9, 3.0.4
Run Dependencies:
java
Description:
Apache Maven is a software project management and comprehension tool.

maverick

Homepage:
Spack package:
Versions:
1.0.4
Description:
MavericK is a program for inferring population structure on the basis of genetic information.

mawk

Homepage:
Spack package:
Versions:
1.3.4-20171017, 1.3.4
Build Dependencies:
gnuconfig
Description:
mawk is an interpreter for the AWK Programming Language.

mbdyn

Homepage:
Spack package:
Versions:
1.7.3
Build Dependencies:
gnuconfig
Description:
MBDyn is the first and possibly the only free general purpose multibody dynamics analysis software.

mbedtls

Homepage:
Spack package:
Versions:
3.1.0, 3.0.0, 2.28.0, 2.27.0, 2.24.0, 2.16.12, 2.16.11, 2.16.9, 2.16.7, 2.16.1, 2.7.19, 2.7.10, 2.3.0, 2.2.1, 2.2.0, 2.1.4, 2.1.3, 1.3.16
Test Dependencies:
perl, python
Description:
mbed TLS (formerly known as PolarSSL) makes it trivially easy for developers to include cryptographic and SSL/TLS capabilities in their (embedded) products, facilitating this functionality with a minimal coding footprint.

mc

Homepage:
Spack package:
Versions:
4.8.26, 4.8.23, 4.8.21, 4.8.20
Build Dependencies:
gnuconfig, ncurses, pkgconfig, glib, libssh2
Link Dependencies:
ncurses, glib, libssh2
Description:
The GNU Midnight Commander is a visual file manager.

mcl

Homepage:
Spack package:
Versions:
14-137
Build Dependencies:
gnuconfig
Description:
The MCL algorithm is short for the Markov Cluster Algorithm, a fast and scalable unsupervised cluster algorithm for graphs (also known as networks) based on simulation of (stochastic) flow in graphs.

mcpp

Homepage:
Spack package:
Versions:
2.7.2
Build Dependencies:
gnuconfig
Description:
MCPP is an alternative C/C++ preprocessor with the highest conformance.

mcutils

Homepage:
Spack package:
Versions:
1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.2.1, 1.2.0, 1.1.2, 1.1.1, 1.1.0, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
heputils
Link Dependencies:
heputils
Description:
A collection of routines for classification and manipulation of particle physics simulated HepMC event records.

mdsplus

Homepage:
Spack package:
Versions:
stable_release-7-96-17
Build Dependencies:
gnuconfig, autoconf, autoconf-archive, automake, libtool, m4, pkgconfig, libxml2, readline, motif, java
Link Dependencies:
libxml2, readline, motif
Run Dependencies:
java
Description:
A set of software tools for data acquisition and storage and a methodology for management of complex scientific data.

mdtest

Homepage:
Spack package:
Versions:
1.9.3
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
mdtest is an MPI-coordinated metadata benchmark test that performs open/stat/close operations on files and directories and then reports the performance.

med

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.2.0
Build Dependencies:
cmake, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
The MED file format is a specialization of the HDF5 standard.

meep

Homepage:
Spack package:
Versions:
master, 1.21.0, 1.3, 1.2.1, 1.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, blas, lapack, harminv, guile, libctl, mpi, hdf5, gsl, python, py-numpy, swig, py-mpi4py
Link Dependencies:
blas, lapack, harminv, guile, libctl, mpi, hdf5, gsl, python, py-numpy, swig, py-mpi4py
Description:
Meep (or MEEP) is a free finite-difference time-domain (FDTD) simulation software package developed at MIT to model electromagnetic systems.

mefit

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
py-numpy, py-htseq, jellyfish, casper
Link Dependencies:
py-numpy, py-htseq, jellyfish, casper
Description:
This pipeline will merge overlapping paired-end reads, calculate merge statistics, and filter reads for quality.

megadock

Homepage:
Spack package:
Versions:
4.0.3
Build Dependencies:
cuda, fftw, mpi
Link Dependencies:
cuda, fftw, mpi
Description:
an ultra-high-performance protein-protein docking for heterogeneous supercomputers

megahit

Homepage:
Spack package:
Versions:
1.1.4, 1.1.3
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

melissa

Homepage:
Spack package:
Versions:
develop, master, 0.7.1, 0.7.0
Build Dependencies:
cmake, libzmq, mpi, pkgconfig, python
Link Dependencies:
libzmq, mpi
Run Dependencies:
python
Description:
Melissa is a file-avoiding, adaptive, fault-tolerant and elastic framework, to run large-scale sensitivity analysis on supercomputers.

memaxes

Homepage:
Spack package:
Versions:
0.5
Build Dependencies:
cmake, qt
Link Dependencies:
qt
Description:
MemAxes is a visualizer for sampled memory trace data.

memcached

Homepage:
Spack package:
Versions:
1.5.20, 1.5.19, 1.5.18, 1.5.17, 1.5.16, 1.5.15, 1.5.14, 1.5.13
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libevent
Description:
Memcached is a high performance multithreaded event-based key/value cache store intended to be used in a distributed system.

meme

Homepage:
Spack package:
Versions:
5.3.0, 5.2.0, 5.1.1, 4.12.0, 4.11.4
Build Dependencies:
gnuconfig, perl, python, mpi, imagemagick, perl-xml-parser, libxml2, libxslt
Link Dependencies:
zlib, libgcrypt, mpi
Run Dependencies:
perl, python, imagemagick, perl-xml-parser, libxml2, libxslt
Description:
The MEME Suite allows the biologist to discover novel motifs in collections of unaligned nucleotide or protein sequences, and to perform a wide variety of other motif-based analyses.

memkind

Homepage:
Spack package:
Versions:
1.13.0, 1.12.0, 1.10.1, 1.10.0, 1.9.0, 1.8.0, 1.7.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, numactl
Link Dependencies:
numactl
Description:
The memkind library is a user extensible heap manager built on top of jemalloc which enables control of memory characteristics and a partitioning of the heap between kinds of memory. The kinds of memory are defined by operating system memory policies that have been applied to virtual address ranges. Memory characteristics supported by memkind without user extension include control of NUMA and page size features. The jemalloc non-standard interface has been extended to enable specialized arenas to make requests for virtual memory from the operating system through the memkind partition interface. Through the other memkind interfaces the user can control and extend memory partition features and allocate memory while selecting enabled features.

memsurfer

Homepage:
Spack package:
Versions:
develop, master, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, cmake, swig, py-cython, py-numpy, eigen, cgal, vtk, hdf5
Link Dependencies:
eigen, cgal, vtk, hdf5
Run Dependencies:
python, py-numpy
Description:
MemSurfer is a tool to compute and analyze membrane surfaces found in a wide variety of large-scale molecular simulations.

memtester

Homepage:
Spack package:
Versions:
4.3.0, 4.2.2, 4.2.1, 4.2.0, 4.1.3
Description:
A userspace utility for testing the memory subsystem for faults.

meraculous

Homepage:
Spack package:
Versions:
2.2.5.1, 2.2.4
Build Dependencies:
cmake, perl, boost, gnuplot, perl-log-log4perl
Link Dependencies:
boost, gnuplot
Run Dependencies:
perl, perl-log-log4perl
Description:
Meraculous is a while genome assembler for Next Generation Sequencing data geared for large genomes.

mercurial

Homepage:
Spack package:
Versions:
5.8, 5.7.1, 5.7, 5.6.1, 5.3, 5.1.2, 5.1.1, 4.9.1, 4.4.1, 4.1.2, 3.9.1, 3.9, 3.8.4, 3.8.3, 3.8.2, 3.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils, py-pygments, py-certifi
Run Dependencies:
python, py-pygments, py-certifi
Description:
Mercurial is a free, distributed source control management tool.

mercury

Homepage:
Spack package:
Versions:
master, 2.1.0, 2.0.1, 2.0.0, 1.0.1, 1.0.0, 0.9.0
Build Dependencies:
cmake, bmi, mpi, libfabric, openpa, boost, ucx
Link Dependencies:
bmi, mpi, libfabric, openpa, boost, ucx
Description:
Mercury is a C library for implementing RPC, optimized for HPC

mesa

Homepage:
Spack package:
Versions:
master, 22.0.2, 21.3.8, 21.3.7, 21.3.1, 21.2.6, 21.2.5, 21.2.4, 21.2.3, 21.2.1, 21.0.3, 21.0.0, 20.3.4, 20.2.1
Build Dependencies:
meson, ninja, pkgconfig, bison, cmake, flex, gettext, python, py-mako, unwind, expat, zlib, libllvm, libx11, libxcb, libxext, libxt, xrandr, glproto
Link Dependencies:
unwind, expat, zlib, libllvm, libx11, libxcb, libxext, libxt, xrandr, glproto
Description:
Mesa is an open-source implementation of the OpenGL specification - a system for rendering interactive 3D graphics.

mesa-demos

Homepage:
Spack package:
Versions:
8.3.0, 8.2.0, 8.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, gl, glx, libx11, libxext, osmesa, glu, mesa-glu, freeglut, glew
Link Dependencies:
gl, glx, libx11, libxext, osmesa, glu, mesa-glu, freeglut, glew
Description:
This package provides some demo applications for testing Mesa.

mesa-glu

Homepage:
Spack package:
Versions:
9.0.2, 9.0.1, 9.0.0
Build Dependencies:
gnuconfig, gl, osmesa
Link Dependencies:
gl, osmesa
Description:
This package provides the Mesa OpenGL Utility library.

mesa18

Homepage:
Spack package:
Versions:
18.3.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, binutils, bison, flex, gettext, python, py-mako, libxml2, zlib, expat, ncurses, libllvm, libx11, libxcb, libxext, glproto
Link Dependencies:
libxml2, zlib, expat, ncurses, libllvm, libx11, libxcb, libxext, glproto
Description:
Mesa is an open-source implementation of the OpenGL specification - a system for rendering interactive 3D graphics.

meshkit

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
gnuconfig, mpi, netgen, cgm, moab
Link Dependencies:
mpi, netgen, cgm, moab
Description:
MeshKit is an open-source library of mesh generation functionality. Its design philosophy is two-fold: it provides a collection of meshing algorithms for use in real meshing problems, along with other tools commonly needed to support mesh generation

meshtool

Homepage:
Spack package:
Versions:
master, oc9.0, oc8.2, oc8.1, oc7.0
Description:
Meshtool - A mesh manipulation utility

meson

Homepage:
Spack package:
Versions:
0.62.1, 0.62.0, 0.61.4, 0.61.2, 0.60.3, 0.60.0, 0.59.2, 0.59.1, 0.59.0, 0.58.2, 0.58.1, 0.58.0, 0.57.2, 0.57.1, 0.57.0, 0.56.2, 0.56.0, 0.55.3, 0.55.2, 0.55.1, 0.55.0, 0.54.3, 0.54.2, 0.54.1, 0.54.0, 0.53.2, 0.49.1, 0.49.0, 0.42.0, 0.41.2, 0.41.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, ninja
Description:
Meson is a portable open source build system meant to be both extremely fast, and as user friendly as possible.

mesquite

Homepage:
Spack package:
Versions:
2.99, 2.3.0, 2.2.0
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Mesquite (Mesh Quality Improvement Toolkit) is designed to provide a stand-alone, portable, comprehensive suite of mesh quality improvement algorithms and components that can be used to construct custom quality improvement algorithms. Mesquite provides a robust and effective mesh improvement toolkit that allows both meshing researchers application scientists to benefit from the latest developments in mesh quality control and improvement.

metabat

Homepage:
Spack package:
Versions:
2.15, 2.14, 2.13, 2.12.1, 2.11.2
Build Dependencies:
cmake, boost
Link Dependencies:
zlib, ncurses
Run Dependencies:
boost, perl
Description:
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities.

metall

Homepage:
Spack package:
Versions:
develop, master, 0.20, 0.19, 0.18, 0.17, 0.16, 0.15, 0.14, 0.13, 0.12, 0.11, 0.10, 0.9
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Test Dependencies:
googletest
Description:
A Persistent Memory Allocator For Data-Centric Analytics

metaphysicl

Homepage:
Spack package:
Versions:
0.5.0, 0.3.3, 0.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool
Description:
Metaprogramming and operator-overloaded classes for numerical simulations.

metis

Homepage:
Spack package:
Versions:
5.1.0, 4.0.3
Build Dependencies:
cmake
Description:
METIS is a set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill reducing orderings for sparse matrices. The algorithms implemented in METIS are based on the multilevel recursive-bisection, multilevel k-way, and multi-constraint partitioning schemes.

metkit

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
cmake, ecbuild, eckit, eccodes, odc
Link Dependencies:
eckit, eccodes, odc
Description:
Toolkit for manipulating and describing meteorological objects, implementing the MARS language and associated processing and semantics.

mfem

Homepage:
Spack package:
Versions:
develop, 4.4.0, 4.3.0, 4.2.0, 4.1.0, 4.0.1-xsdk, 4.0.0, 3.4.1-laghos-v2.0, 3.4.0, 3.3.2, 3.3.1-laghos-v1.0, 3.3, 3.2, 3.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, hypre, metis, blas, lapack, sundials, pumi, gslib, suite-sparse, superlu-dist, strumpack, petsc, slepc, mpfr, netcdf-c, unwind, zlib, gnutls, conduit, libfms, occa, raja, libceed, umpire, amgx
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, hypre, metis, blas, lapack, sundials, pumi, gslib, suite-sparse, superlu-dist, strumpack, petsc, slepc, mpfr, netcdf-c, unwind, zlib, gnutls, conduit, libfms, occa, raja, libceed, umpire, amgx
Description:
Free, lightweight, scalable C++ library for finite element methods.

mg

Homepage:
Spack package:
Versions:
6.6
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
Mg is intended to be a small, fast, and portable editor for people who can't (or don't want to) run emacs for one reason or another, or are not familiar with the vi editor. It is compatible with emacs because there shouldn't be any reason to learn more editor types than emacs or vi.

mgis

Homepage:
Spack package:
Versions:
master, 2.0, 1.2.2, 1.2.1, 1.2, 1.1, 1.0.1, 1.0, rliv-2.0, rliv-1.2, rliv-1.1, rliv-1.0
Build Dependencies:
cmake, tfel, boost, py-numpy, python
Link Dependencies:
tfel, boost, py-numpy
Run Dependencies:
boost, py-numpy, python
Description:
The MFrontGenericInterfaceSupport project (MGIS) provides helper functions for various solvers to interact with behaviour written using MFront generic interface. MGIS is written in C++. Bindings are provided for C and fortran (2003). A FEniCS binding is also available.

microbiomeutil

Homepage:
Spack package:
Versions:
20110519
Build Dependencies:
perl, blast-plus, cdbfasta
Link Dependencies:
blast-plus, cdbfasta
Run Dependencies:
perl
Description:
Microbiome analysis utilities

microsocks

Homepage:
Spack package:
Versions:
develop, 1.0.2
Description:
Microsocks is a multithreaded, small, efficient SOCKS5 server. It is a SOCKS5 service that you can run on your remote boxes to tunnel connections through them, if for some reason SSH doesn't cut it for you.

migraphx

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, blaze, python, py-pybind11, rocm-cmake, hip, llvm-amdgpu, rocblas, miopen-hip
Link Dependencies:
protobuf, nlohmann-json, msgpack-c, half, hip, llvm-amdgpu, rocblas, miopen-hip
Description:
AMD's graph optimization engine.

migrate

Homepage:
Spack package:
Versions:
3.6.11
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, openmpi
Link Dependencies:
zlib, openmpi
Run Dependencies:
openmpi
Description:
Migrate estimates effective population sizes and past migration rates between n population assuming a migration matrix model with asymmetric migration rates and different subpopulation sizes

mii

Homepage:
Spack package:
Versions:
1.0.4
Description:
Mii is an inverted indexing system for environment modules. After installation you will no longer need to load modules to run applications. NOTE: Additional steps are required after installing the Spack package to enable Mii in your shell. Please see the README on the homepage for more information.

millepede

Homepage:
Spack package:
Versions:
04-11-01
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Millepede II is a package for linear least squares fits with a large number of parameters. Developed for the alignment and calibration of tracking detectors.

mimalloc

Homepage:
Spack package:
Versions:
master, 2.0.6, 1.7.6, dev-slice, dev
Build Dependencies:
cmake
Description:
mimalloc is a compact general purpose allocator with excellent performance.

minc-toolkit

Homepage:
Spack package:
Versions:
1.9.18.1
Build Dependencies:
cmake, perl, perl-text-format, perl-getopt-tabular, perl-mni-perllib, flex, bison, freeglut
Link Dependencies:
perl, zlib, freeglut
Run Dependencies:
perl-text-format, perl-getopt-tabular, perl-mni-perllib
Description:
Bundles multiple MINC-related packages

minced

Homepage:
Spack package:
Versions:
0.3.2, 0.2.0, 0.1.6
Build Dependencies:
java
Run Dependencies:
java
Description:
MinCED is a program to find Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) in full genomes or environmental datasets such as metagenomes, in which sequence size can be anywhere from 100 to 800 bp.

mindthegap

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib
Description:
MindTheGap is a software that performs integrated detection and assembly of genomic insertion variants in NGS read datasets with respect to a reference genome.

miniaero

Homepage:
Spack package:
Versions:
2016-11-11
Build Dependencies:
kokkos-legacy
Link Dependencies:
kokkos-legacy
Description:
Proxy Application. MiniAero is a mini-application for the evaulation of programming models and hardware for next generation platforms.

miniamr

Homepage:
Spack package:
Versions:
master, 1.6.6, 1.6.5, 1.6.4, 1.4.4, 1.4.3, 1.4.2, 1.4.1, 1.4.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. 3D stencil calculation with Adaptive Mesh Refinement (AMR)

miniapp-ascent

Homepage:
Spack package:
Versions:
master
Run Dependencies:
ascent
Description:
Pantheon/E4S/Ascent in-situ miniapp example workflow

miniasm

Homepage:
Spack package:
Versions:
2018-3-30
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Miniasm is a very fast OLC-based de novo assembler for noisy long reads.

miniconda2

Homepage:
Spack package:
Versions:
4.7.12.1, 4.6.14, 4.5.11, 4.5.4, 4.3.30, 4.3.14, 4.3.11
Description:
The minimalist bootstrap toolset for conda and Python2.

miniconda3

Homepage:
Spack package:
Versions:
4.10.3, 4.9.2, 4.8.2, 4.7.12.1, 4.6.14, 4.5.11, 4.5.4, 4.3.30, 4.3.14, 4.3.11
Description:
The minimalist bootstrap toolset for conda and Python3.

minife

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
mpi, qthreads
Link Dependencies:
mpi, qthreads
Description:
Proxy Application. MiniFE is an proxy application for unstructured implicit finite element codes.

miniforge3

Homepage:
Spack package:
Versions:
4.8.3-4-Linux-x86_64, 4.8.3-4-Linux-aarch64, 4.8.3-2-MacOSX-x86_64, 4.8.3-2-Linux-x86_64, 4.8.3-2-Linux-aarch64
Description:
Miniforge3 is a minimal installer for conda specific to conda-forge.

minigan

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-setuptools, py-torch, py-numpy, py-horovod, py-torchvision, py-matplotlib
Run Dependencies:
python, py-torch, py-numpy, py-horovod, py-torchvision, py-matplotlib
Description:
miniGAN is a generative adversarial network code developed as part of the Exascale Computing Project's (ECP) ExaLearn project at Sandia National Laboratories.

minighost

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. A Finite Difference proxy application which implements a difference stencil across a homogenous three dimensional domain.

minigmg

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi, simde
Link Dependencies:
mpi, simde
Description:
miniGMG is a compact benchmark for understanding the performance challenges associated with geometric multigrid solvers found in applications built from AMR MG frameworks like CHOMBO or BoxLib when running on modern multi- and manycore-based supercomputers. It includes both productive reference examples as well as highly-optimized implementations for CPUs and GPUs. It is sufficiently general that it has been used to evaluate a broad range of research topics including PGAS programming models and algorithmic tradeoffs inherit in multigrid. miniGMG was developed under the CACHE Joint Math-CS Institute. Note, miniGMG code has been supersceded by HPGMG.

minimap2

Homepage:
Spack package:
Versions:
2.14, 2.10, 2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Link Dependencies:
zlib
Run Dependencies:
python
Description:
Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database. Mappy provides a convenient interface to minimap2.

minimd

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. A simple proxy for the force computations in a typical molecular dynamics applications.

minio

Homepage:
Spack package:
Versions:
2020-07-13T18-09-56Z, 2020-07-12T19-14-17Z, 2020-07-02T00-15-09Z
Build Dependencies:
go
Description:
MinIO is a High Performance Object Storage released under Apache License v2.0. It is API compatible with Amazon S3 cloud storage service. Use MinIO to build high performance infrastructure for machine learning, analytics and application data workloads.

miniqmc

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0, 0.2.0
Build Dependencies:
cmake, mpi, lapack
Link Dependencies:
mpi, lapack
Description:
A simplified real space QMC code for algorithm development, performance portability testing, and computer science experiments

minisign

Homepage:
Spack package:
Versions:
0.9, 0.8, 0.7
Build Dependencies:
cmake, libsodium
Link Dependencies:
libsodium
Description:
Minisign is a dead simple tool to sign files and verify signatures.

minismac2d

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. Solves the finite-differenced 2D incompressible Navier-Stokes equations with Spalart-Allmaras one-equation turbulence model on a structured body conforming grid.

minitri

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
A simple, triangle-based data analytics proxy application.

minivite

Homepage:
Spack package:
Versions:
develop, 1.1, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
miniVite is a proxy application that implements a single phase of Louvain method in distributed memory for graph community detection.

minixyce

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. A portable proxy of some of the key capabilities in the electrical modeling Xyce.

minizip

Homepage:
Spack package:
Versions:
1.2.11
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4, zlib
Link Dependencies:
zlib
Description:
C library for zip/unzip via zLib.

minuit

Homepage:
Spack package:
Versions:
5.34.14, 5.28.00, 5.27.02, 5.24.00, 5.22.00, 5.21.06, 5.20.00, 5.18.00, 5.16.00, 5.14.00, 5.12.00, 5.10.00, 5.08.00, 1.7.9, 1.7.6, 1.7.1, 1.6.3, 1.6.0, 1.5.2, 1.5.0
Build Dependencies:
gnuconfig
Description:
MINUIT is a physics analysis tool for function minimization.

miopen-hip

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, pkgconfig, boost, bzip2, sqlite, half, zlib, rocm-cmake, hip, rocm-clang-ocl, rocblas, mlirmiopen
Link Dependencies:
boost, bzip2, sqlite, half, zlib, hip, rocm-clang-ocl, rocblas, mlirmiopen
Description:
AMD's library for high performance machine learning primitives.

miopen-opencl

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, pkgconfig, half, miopengemm, rocm-cmake, hip, rocm-opencl, mlirmiopen
Link Dependencies:
boost, bzip2, sqlite, miopengemm, hip, rocm-opencl, mlirmiopen
Description:
AMD's library for high performance machine learning primitives.

miopen-tensile

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0
Build Dependencies:
cmake, msgpack-c, python, py-virtualenv, perl-file-which, py-pyyaml, py-wheel, py-msgpack, py-pip, rocm-cmake, hip, llvm-amdgpu, rocminfo
Link Dependencies:
msgpack-c, hip, llvm-amdgpu, rocminfo
Description:
MIOpenTensile provides host-callable interfaces to Tensile library. MIOpenTensile supports one programming model: HIP

miopengemm

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 1.1.6
Build Dependencies:
cmake, rocm-cmake, rocm-opencl
Link Dependencies:
rocm-opencl
Description:
An OpenCL general matrix multiplication (GEMM) API and kernel generator

mira

Homepage:
Spack package:
Versions:
4.0.2
Build Dependencies:
gnuconfig, boost, expat, gperftools
Link Dependencies:
boost, expat, gperftools
Description:
MIRA is a multi-pass DNA sequence data assembler/mapper for whole genome and EST/RNASeq projects.

miranda

Homepage:
Spack package:
Versions:
3.3a
Build Dependencies:
gnuconfig
Description:
miRanda is an algorithm for finding genomic targets for microRNAs.

mirdeep2

Homepage:
Spack package:
Versions:
0.0.8
Build Dependencies:
perl, perl-pdf-api2, bowtie, viennarna, squid, randfold
Link Dependencies:
bowtie, viennarna, squid, randfold
Run Dependencies:
perl, perl-pdf-api2
Description:
miRDeep2 is a completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs.

mitofates

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
libsvm
Link Dependencies:
libsvm
Run Dependencies:
perl, perl-inline-c, perl-perl6-slurp, perl-math-cephes
Description:
MitoFates predicts mitochondrial presequence, a cleavable localization signal located in N-terminal, and its cleaved position.

mitos

Homepage:
Spack package:
Versions:
0.9.2, 0.9.1
Build Dependencies:
cmake, dyninst, hwloc, mpi
Link Dependencies:
dyninst, hwloc, mpi
Description:
Mitos is a library and a tool for collecting sampled memory performance data to view with MemAxes

mivisionx

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 1.7
Build Dependencies:
cmake, ffmpeg, protobuf, opencv, rocm-opencl, rocm-cmake, miopen-opencl, miopengemm, openssl, miopen-hip
Link Dependencies:
rocm-opencl, miopen-opencl, miopengemm, openssl, miopen-hip
Description:
MIVisionX toolkit is a set of comprehensive computer vision and machine intelligence libraries, utilities, and applications bundled into a single toolkit.

mixcr

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
java
Link Dependencies:
java
Description:
MiXCR is a universal framework that processes big immunome data from raw sequences to quantitated clonotypes. MiXCR efficiently handles paired- and single-end reads, considers sequence quality, corrects PCR errors and identifies germline hypermutations. The software supports both partial- and full-length profiling and employs all available RNA or DNA information, including sequences upstream of V and downstream of J gene segments.

mkfontdir

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Run Dependencies:
mkfontscale
Description:
mkfontdir creates the fonts.dir files needed by the legacy X server core font system. The current implementation is a simple wrapper script around the mkfontscale program, which must be built and installed first.

mkfontscale

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, libfontenc, freetype, xproto, pkgconfig, util-macros
Link Dependencies:
libfontenc, freetype, xproto
Description:
mkfontscale creates the fonts.scale and fonts.dir index files used by the legacy X11 font system.

mlhka

Homepage:
Spack package:
Versions:
2.1
Description:
A maximum likelihood ratio test of natural selection, using polymorphism and divergence data.

mlirmiopen

Homepage:
Spack package:
Versions:
5.1.0
Build Dependencies:
cmake, python, bzip2, sqlite, half, pkgconfig, hip, llvm-amdgpu, hsa-rocr-dev, rocm-cmake
Link Dependencies:
z3, zlib, ncurses, bzip2, sqlite, half, hip, llvm-amdgpu, hsa-rocr-dev
Description:
Multi-Level Intermediate Representation for rocm miopen project.

mlocate

Homepage:
Spack package:
Versions:
0.26, 0.25, 0.24
Build Dependencies:
gnuconfig
Description:
mlocate is a locate/updatedb implementation. The 'm' stands for "merging": updatedb reuses the existing database to avoid rereading most of the file system, which makes updatedb faster and does not trash the system caches as much.

mlperf-deepcam

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cuda, python, py-h5py, py-pycuda, py-mpi4py, py-torch, py-matplotlib, py-basemap, py-pillow, py-numpy, py-argparse, py-pandas, py-apex, py-wandb, py-mlperf-logging, py-pytorch-gradual-warmup-lr
Link Dependencies:
cuda
Run Dependencies:
python, py-h5py, py-pycuda, py-mpi4py, py-torch, py-matplotlib, py-basemap, py-pillow, py-numpy, py-argparse, py-pandas, py-apex, py-wandb, py-mlperf-logging, py-pytorch-gradual-warmup-lr
Description:
PyTorch implementation for the climate segmentation benchmark, based on the Exascale Deep Learning for Climate Analytics

mmg

Homepage:
Spack package:
Versions:
5.6.0, 5.5.2, 5.4.0, 5.3.13
Build Dependencies:
cmake, scotch, doxygen, vtk
Link Dependencies:
scotch, doxygen, vtk
Description:
Mmg is an open source software for simplicial remeshing. It provides 3 applications and 4 libraries: - the mmg2d application and the libmmg2d library: adaptation and optimization of a two-dimensional triangulation and generation of a triangulation from a set of points or from given boundary edges - the mmgs application and the libmmgs library: adaptation and optimization of a surface triangulation and isovalue discretization - the mmg3d application and the libmmg3d library: adaptation and optimization of a tetrahedral mesh and implicit domain meshing - the libmmg library gathering the libmmg2d, libmmgs and libmmg3d libraries.

mmv

Homepage:
Spack package:
Versions:
1.01b
Description:
Move/Copy/Append/Link multiple files mmv is a program to move/copy/append/link multiple files according to a set of wildcard patterns. This multiple action is performed safely, i.e. without any unexpected deletion of files due to collisions of target names with existing filenames or with other target names.

moab

Homepage:
Spack package:
Versions:
develop, master, 5.3.0, 5.2.1, 5.2.0, 5.1.0, 5.0.2, 5.0.1, 5.0.0, 4.9.2, 4.9.1, 4.9.0, 4.8.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, blas, lapack, mpi, hdf5, netcdf-c, parallel-netcdf, cgm, metis, parmetis, zoltan
Link Dependencies:
blas, lapack, mpi, hdf5, netcdf-c, parallel-netcdf, cgm, metis, parmetis, zoltan
Description:
MOAB is a component for representing and evaluating mesh data. MOAB can store structured and unstructured mesh, consisting of elements in the finite element 'zoo.' The functional interface to MOAB is simple yet powerful, allowing the representation of many types of metadata commonly found on the mesh. MOAB is optimized for efficiency in space and time, based on access to mesh in chunks rather than through individual entities, while also versatile enough to support individual entity access.

mochi-margo

Homepage:
Spack package:
Versions:
main, 0.9.10, 0.9.9, 0.9.8, 0.9.7, 0.9.6, 0.9.5, 0.9.4, 0.9.3, 0.9.2, 0.9.1, 0.9, 0.7.2, 0.7.1, 0.7, 0.6.4, 0.6.3, 0.6.2, 0.6.1, 0.6, 0.5.2, 0.5.1, 0.5, 0.4.7, 0.4.6, 0.4.5, 0.4.4, 0.4.3, 0.4.2
Build Dependencies:
gnuconfig, json-c, autoconf, m4, automake, libtool, pkgconfig, argobots, mercury
Link Dependencies:
json-c, argobots, mercury
Run Dependencies:
mercury
Description:
A library that provides Argobots bindings to the Mercury RPC implementation.

mochi-thallium

Homepage:
Spack package:
Versions:
main, 0.10.1, 0.10.0, 0.9.1, 0.9, 0.8.5, 0.8.4, 0.8.3, 0.8.2, 0.8.1, 0.8, 0.7, 0.6.1, 0.6, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.5, 0.4.2, 0.4.1, 0.4, 0.3.4, 0.3.3, 0.3.2, 0.3.1, 0.3
Build Dependencies:
cmake, pkgconfig, mochi-margo, cereal
Link Dependencies:
mochi-margo, cereal
Description:
A Mochi C++14 library wrapping Margo, Mercury, and Argobots and providing an object-oriented way to use these libraries.

model-traits

Homepage:
Spack package:
Versions:
main, 0.1.1, 0.1.0
Build Dependencies:
cmake, yaml-cpp, pumi, simmetrix-simmodsuite, fmt, mpi
Link Dependencies:
yaml-cpp, pumi, simmetrix-simmodsuite, fmt, mpi
Test Dependencies:
catch2
Description:
Model setup and querying in C++.

modeltest-ng

Homepage:
Spack package:
Versions:
0.1.7
Build Dependencies:
cmake, glib, bison, flex, openmpi
Link Dependencies:
glib, openmpi
Description:
Best-fit model selection

modern-wheel

Homepage:
Spack package:
Versions:
1.2, 1.1, 1.0
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
C++ utility collection. Provides various facilities of common use in modern codebases like dynamic linking helpers, loadable plugins facilities and misc patterns.

modylas

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, autoconf, automake, mpi
Link Dependencies:
mpi
Description:
The 'MOlecular DYnamics Software for LArge Systems' (MODYLAS) is a general-purpose, molecular dynamics simulation program suited to the simulation of very large physical, chemical, and biological systems.

mofem-cephas

Homepage:
Spack package:
Versions:
develop, 0.8.17, 0.8.16, 0.8.15, 0.8.14, 0.8.13, 0.8.12, 0.8.11, 0.8.10, 0.8.9, 0.8.8, 0.8.7
Build Dependencies:
cmake, mpi, boost, parmetis, hdf5, petsc, slepc, moab, adol-c, tetgen, med
Link Dependencies:
mpi, boost, parmetis, hdf5, petsc, slepc, moab, adol-c, tetgen, med
Description:
MoFEM is finite element core library

mofem-fracture-module

Homepage:
Spack package:
Versions:
develop, 0.9.50, 0.9.49, 0.9.48, 0.9.47, 0.9.46, 0.9.45, 0.9.44, 0.9.42
Build Dependencies:
cmake, mofem-cephas, mofem-users-modules
Link Dependencies:
mofem-users-modules
Run Dependencies:
mofem-cephas, mofem-users-modules
Description:
mofem fracture module

mofem-minimal-surface-equation

Homepage:
Spack package:
Versions:
develop, 0.3.10, 0.3.9
Build Dependencies:
cmake, mofem-cephas, mofem-users-modules
Link Dependencies:
mofem-users-modules
Run Dependencies:
mofem-cephas, mofem-users-modules
Description:
mofem minimal surface equation

mofem-users-modules

Homepage:
Spack package:
Versions:
develop, 0.8.17, 0.8.16, 0.8.15, 0.8.14, 0.8.12, 0.8.11, 0.8.10, 0.8.8, 0.8.7
Build Dependencies:
cmake, mofem-cephas
Link Dependencies:
mofem-cephas
Run Dependencies:
mofem-cephas
Description:
MofemUsersModules creates installation environment for user-provided modules and extends of mofem-cephas package. For more information how to work with Spack and MoFEM see http://mofem.eng.gla.ac.uk/mofem/html/install_spack.html

mokutil

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0, 0.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, efivar
Link Dependencies:
efivar
Description:
The utility to manipulate machines owner keys which managed in shim.

molcas

Homepage:
Spack package:
Versions:
8.2
Build Dependencies:
cmake, openmpi, openblas, hdf5
Link Dependencies:
openmpi, openblas, hdf5
Description:
Molcas is an ab initio quantum chemistry software package developed by scientists to be used by scientists. Please set the path to licence file with the following command export MOLCAS_LICENSE=/path/to/molcas/license/

molden

Homepage:
Spack package:
Versions:
6.7, 6.6, 6.5
Build Dependencies:
libx11, libxmu, gl, glu, makedepend
Link Dependencies:
libx11, libxmu, gl, glu
Description:
A package for displaying Molecular Density from various Ab Initio packages

mongo-c-driver

Homepage:
Spack package:
Versions:
1.21.0, 1.17.6, 1.17.5, 1.17.0, 1.16.2, 1.9.5, 1.9.4, 1.9.3, 1.9.1, 1.8.1, 1.8.0, 1.7.0, 1.6.3, 1.6.2, 1.6.1
Build Dependencies:
cmake, autoconf, automake, libtool, m4, pkgconfig, libbson, openssl, snappy, zlib, zstd
Link Dependencies:
libbson, openssl, snappy, zlib, zstd
Description:
libmongoc is a client library written in C for MongoDB.

mongo-cxx-driver

Homepage:
Spack package:
Versions:
3.2.0
Build Dependencies:
cmake, mongo-c-driver
Link Dependencies:
mongo-c-driver
Description:
C++ Driver for MongoDB

mongodb-async-driver

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
The MongoDB Asynchronous Java Driver.

mono

Homepage:
Spack package:
Versions:
6.12.0.122, 6.8.0.123, 6.8.0.105, 5.18.0.240, 5.16.0.220, 5.14.0.177, 5.12.0.309, 5.10.1.57, 5.4.1.7, 5.4.0.167, 5.0.1.1, 4.8.0.524
Build Dependencies:
gnuconfig, cmake, iconv, perl, python
Link Dependencies:
iconv
Description:
Mono is a software platform designed to allow developers to easily create cross platform applications. It is an open source implementation of Microsoft's .NET Framework based on the ECMA standards for C# and the Common Language Runtime.

montage

Homepage:
Spack package:
Versions:
6.0
Build Dependencies:
freetype, bzip2, libpng
Link Dependencies:
freetype, bzip2, libpng
Description:
Montage is a toolkit for assembling Flexible Image Transport System (FITS) images into custom mosaics.

moosefs

Homepage:
Spack package:
Versions:
3.0.109, 3.0.108, 3.0.107, 3.0.105, 3.0.104, 3.0.103
Build Dependencies:
gnuconfig
Description:
MooseFS is a Petabyte Open Source Network Distributed File System. It is easy to deploy and maintain, fault tolerant, highly performing, easily scalable, POSIX compliant.

moreutils

Homepage:
Spack package:
Versions:
0.65, 0.63
Build Dependencies:
perl, docbook-xsl, libxml2, libxslt
Description:
Additional Unix utilities. This is a growing collection of the Unix tools that nobody thought to write long ago, when Unix was young.

mosh

Homepage:
Spack package:
Versions:
1.3.2, 1.3.0, 1.2.6
Build Dependencies:
gnuconfig, protobuf, ncurses, zlib, openssl, pkgconfig
Link Dependencies:
protobuf, ncurses, zlib, openssl
Run Dependencies:
perl
Description:
Remote terminal application that allows roaming, supports intermittent connectivity, and provides intelligent local echo and line editing of user keystrokes. Mosh is a replacement for SSH. It's more robust and responsive, especially over Wi-Fi, cellular, and long-distance links.

mosquitto

Homepage:
Spack package:
Versions:
2.0.14, 1.6.15, 1.5.11, 1.4.15, 1.3.5
Build Dependencies:
cmake, openssl, cjson, c-ares, libwebsockets
Link Dependencies:
openssl, cjson, c-ares, libwebsockets
Description:
Mosquitto is an open source implementation of a server for version 5.0, 3.1.1, and 3.1 of the MQTT protocol.

mothur

Homepage:
Spack package:
Versions:
1.46.1, 1.43.0, 1.42.1, 1.40.5, 1.39.5
Build Dependencies:
boost, readline
Link Dependencies:
boost, readline
Run Dependencies:
vsearch
Description:
This project seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community.

motif

Homepage:
Spack package:
Versions:
2.3.8
Build Dependencies:
gnuconfig, flex, libx11, libxt, libxext, libxft, libxcomposite, libxfixes, xbitmaps, jpeg, automake, autoconf, m4, libtool, pkgconfig
Link Dependencies:
flex, libx11, libxt, libxext, libxft, libxcomposite, libxfixes, xbitmaps, jpeg
Description:
" Motif - Graphical user interface (GUI) specification and the widget toolkit

motioncor2

Homepage:
Spack package:
Versions:
1.4.7, 1.1.0, 1.0.5, 1.0.4
Run Dependencies:
cuda, libtiff
Description:
MotionCor2 is a multi-GPU program that corrects beam-induced sample motion recorded on dose fractionated movie stacks. It implements a robust iterative alignment algorithm that delivers precise measurement and correction of both global and non-uniform local motions at single pixel level, suitable for both single-particle and tomographic images. MotionCor2 is sufficiently fast to keep up with automated data collection.

mount-point-attributes

Homepage:
Spack package:
Versions:
master, 1.1.1, 1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool
Description:
Library to turn expensive, non-scalable file system calls into simple string comparison operations.

mozjs

Homepage:
Spack package:
Versions:
24.2.0, 17.0.0, 1.8.5
Build Dependencies:
gnuconfig, perl, pkgconfig, python, zip, unzip, nspr, libffi, readline, zlib
Link Dependencies:
nspr, libffi, readline, zlib
Description:
SpiderMonkey is Mozilla's JavaScript engine written in C/C++. It is used in various Mozilla products, including Firefox, and is available under the MPL2.

mpark-variant

Homepage:
Spack package:
Versions:
1.4.0, 1.3.0
Build Dependencies:
cmake
Description:
C++17 `std::variant` for C++11/14/17

mpas-model

Homepage:
Spack package:
Versions:
7.1, 7.0, 6.3, 6.2
Build Dependencies:
mpi, parallelio
Link Dependencies:
mpi, parallelio
Description:
The Model for Prediction Across Scales (MPAS) is a collaborative project for developing atmosphere, ocean and other earth-system simulation components for use in climate, regional climate and weather studies.

mpc

Homepage:
Spack package:
Versions:
1.2.1, 1.1.0, 1.0.3, 1.0.2
Build Dependencies:
gnuconfig, gmp, mpfr
Link Dependencies:
gmp, mpfr
Description:
Gnu Mpc is a C library for the arithmetic of complex numbers with arbitrarily high precision and correct rounding of the result.

mpdecimal

Homepage:
Spack package:
Versions:
2.4.2
Build Dependencies:
gnuconfig, gmake
Description:
mpdecimal is a package for correctly-rounded arbitrary precision decimal floating point arithmetic.

mpe2

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
gnuconfig, mpi, libx11
Link Dependencies:
mpi, libx11
Description:
Message Passing Extensions (MPE): Parallel, shared X window graphics

mpest

Homepage:
Spack package:
Versions:
1.5
Description:
MP-EST estimates species trees from a set of gene trees by maximizing a pseudo-likelihood function.

mpfi

Homepage:
Spack package:
Versions:
1.5.4, 1.5.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, texinfo, gmp, mpfr
Link Dependencies:
gmp, mpfr
Description:
Library for arbitrary precision interval arithmetic based on MPFR

mpfr

Homepage:
Spack package:
Versions:
4.1.0, 4.0.2, 4.0.1, 4.0.0, 3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2
Build Dependencies:
gnuconfig, gmp, autoconf, automake, libtool, m4, autoconf-archive, texinfo
Link Dependencies:
gmp
Description:
The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.

mpi-bash

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
gnuconfig, bash, mpi, libcircle
Link Dependencies:
bash, mpi, libcircle
Description:
Parallel scripting right from the Bourne-Again Shell (Bash)

mpibind

Homepage:
Spack package:
Versions:
master, 0.8.0, 0.7.0, 0.5.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, python, py-cffi
Link Dependencies:
hwloc, flux-core
Run Dependencies:
python, py-cffi
Description:
A memory-driven algorithm to map parallel codes to heterogeneous architectures

mpich

Homepage:
Spack package:
Versions:
develop, 4.0.2, 4.0.1, 4.0, 3.4.3, 3.4.2, 3.4.1, 3.4, 3.3.2, 3.3.1, 3.3, 3.2.1, 3.2, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1, 3.0.4
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gnuconfig, yaksa, hcoll, findutils, pkgconfig, hwloc, libfabric, ucx, mxm, libpciaccess, libxml2, slurm, pmix, argobots, automake, libtool, m4, autoconf, python, cray-pmi
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, yaksa, hcoll, hwloc, libfabric, ucx, mxm, libpciaccess, libxml2, slurm, pmix, argobots, cray-pmi
Description:
MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.

mpifileutils

Homepage:
Spack package:
Versions:
develop, 0.11.1, 0.11, 0.10.1, 0.10, 0.9.1, 0.9
Build Dependencies:
mpi, libcircle, dtcmp, libarchive, attr, bzip2, libcap, openssl, cmake
Link Dependencies:
mpi, libcircle, dtcmp, libarchive, attr, bzip2, libcap, openssl
Description:
mpiFileUtils is a suite of MPI-based tools to manage large datasets, which may vary from large directory trees to large files. High- performance computing users often generate large datasets with parallel applications that run with many processes (millions in some cases). However those users are then stuck with single-process tools like cp and rm to manage their datasets. This suite provides MPI-based tools to handle typical jobs like copy, remove, and compare for such datasets, providing speedups of up to 20-30x.

mpilander

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
There can only be one (MPI process)!

mpileaks

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, mpi, adept-utils, callpath
Link Dependencies:
mpi, adept-utils, callpath
Description:
Tool to detect and report MPI objects like MPI_Requests and MPI_Datatypes.

mpip

Homepage:
Spack package:
Versions:
master, 3.5, 3.4.1
Build Dependencies:
gnuconfig, python, mpi, unwind
Link Dependencies:
mpi, unwind
Description:
mpiP: Lightweight, Scalable MPI Profiling

mpir

Homepage:
Spack package:
Versions:
develop, 2.7.0, 2.6.0
Build Dependencies:
autoconf, yasm
Link Dependencies:
yasm
Description:
Multiple Precision Integers and Rationals.

mpitrampoline

Homepage:
Spack package:
Versions:
develop, 4.0.2, 4.0.1, 4.0.0, 3.8.0, 3.7.0, 3.6.0, 3.5.1, 3.5.0, 3.4.1, 3.4.0, 3.3.1, 3.3.0, 3.2.0, 3.1.0, 3.0.0, 2.8.1, 2.8.0, 2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.1.0, 2.0.0, 1.1.0, 1.0.1
Build Dependencies:
cmake
Description:
MPItrampoline: A forwarding MPI implementation that can use any other MPI implementation via an MPI ABI.

mpiwrapper

Homepage:
Spack package:
Versions:
develop, 2.8.1, 2.8.0, 2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.2, 2.3.1, 2.3.0, 2.2.2, 2.2.1, 2.2.0, 2.0.0, 1.0.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
MPIwrapper wraps MPI implementations so that they can be used with MPItrampoline

mpix-launch-swift

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
stc, tcl, mpi, swig
Link Dependencies:
stc, tcl, mpi
Description:
Library that allows a child MPI application to be launched inside a subset of processes in a parent MPI application.

mpl

Homepage:
Spack package:
Versions:
develop, 0.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
A C++17 message passing library based on MPI.

mpt

Homepage:
Spack package:
Versions:
1.4
Description:
HPE MPI is HPE's implementation of the Message Passing Interface (MPI) standard. Note: HPE MPI is proprietry software. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

mptensor

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
cmake, mpi, blas, lapack, scalapack, doxygen
Link Dependencies:
mpi, blas, lapack, scalapack
Description:
mptensor is parallel C++ libarary for tensor calculations. It provides similar interfaces as Numpy and Scipy in Python.

mrbayes

Homepage:
Spack package:
Versions:
3.2.7a, 3.2.7
Build Dependencies:
gnuconfig, libbeagle, mpi, readline
Link Dependencies:
libbeagle, mpi, readline
Description:
MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. MrBayes uses Markov chain Monte Carlo (MCMC) methods to estimate the posterior distribution of model parameters.

mrbench

Homepage:
Spack package:
Versions:
master
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
A simple Java tool for SMTP server benchmarking.

mrchem

Homepage:
Spack package:
Versions:
1.0.0, 0.2.2, 0.2.1, 0.2.0, 0.1.0
Build Dependencies:
cmake, mpi, eigen, nlohmann-json, xcfun, mrcpp
Link Dependencies:
mpi, eigen, nlohmann-json, xcfun, mrcpp
Description:
MRChem is a numerical real-space code for molecular electronic structure calculations within the self-consistent field (SCF) approximations of quantum chemistry: Hartree-Fock and Density Functional Theory.

mrcpp

Homepage:
Spack package:
Versions:
1.3.6, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.0, 1.1.0, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
cmake, mpi, eigen
Link Dependencies:
mpi, eigen
Description:
The MultiResolution Computation Program Package (MRCPP) is a general purpose numerical mathematics library based on multiresolution analysis and the multiwavelet basis which provide low-scaling algorithms as well as rigorous error control in numerical computations.

mrnet

Homepage:
Spack package:
Versions:
5.0.1-3, 5.0.1-2, 5.0.1, 4.1.0, 4.0.0
Build Dependencies:
gnuconfig, boost
Link Dependencies:
boost
Description:
The MRNet Multi-Cast Reduction Network.

mrtrix3

Homepage:
Spack package:
Versions:
2017-09-25, 3.0.3
Build Dependencies:
python, py-numpy, glu, qt, eigen, zlib, libtiff, fftw
Link Dependencies:
glu, qt, eigen, zlib, libtiff, fftw
Run Dependencies:
python, py-numpy
Description:
MRtrix provides a set of tools to perform various advanced diffusion MRI analyses, including constrained spherical deconvolution (CSD), probabilistic tractography, track-density imaging, and apparent fibre density.

mscgen

Homepage:
Spack package:
Versions:
0.20
Build Dependencies:
gnuconfig, flex, bison, pkgconfig, libgd
Link Dependencies:
flex, bison, pkgconfig, libgd
Description:
Mscgen is a small program that parses Message Sequence Chart descriptions and produces PNG, SVG, EPS or server side image maps (ismaps) as the output.

msgpack-c

Homepage:
Spack package:
Versions:
3.1.1, 3.0.1, 1.4.1
Build Dependencies:
cmake
Test Dependencies:
googletest
Description:
A small, fast binary interchange format convertible to/from JSON

mshadow

Homepage:
Spack package:
Versions:
master, 20170721
Description:
MShadow is a lightweight CPU/GPU Matrix/Tensor C++ Template Library. in C++/CUDA.

msmc

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gsl, dmd
Run Dependencies:
gsl
Description:
This software implements MSMC, a method to infer population size and gene flow from multiple genome sequences

msmc2

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1, 2.0.2, 2.0.1, 2.0.0
Build Dependencies:
gsl, dmd
Run Dependencies:
gsl
Description:
This program implements MSMC2, a method to infer population size history and population separation history from whole genome sequencing data.

mstk

Homepage:
Spack package:
Versions:
master, 3.3.6, 3.3.5, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.1, 3.2.0, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0
Build Dependencies:
cmake, mpi, zoltan, metis, exodusii
Link Dependencies:
mpi, zoltan, metis, exodusii
Test Dependencies:
unittest-cpp
Description:
MSTK is a mesh framework that allows users to represent, manipulate and query unstructured 3D arbitrary topology meshes in a general manner without the need to code their own data structures. MSTK is a flexible framework in that it allows a variety of underlying representations for the mesh while maintaining a common interface. It allows users to choose from different mesh representations either at initialization (implemented) or during the program execution (not yet implemented) so that the optimal data structures are used for the particular algorithm. The interaction of users and applications with MSTK is through a functional interface that acts as though the mesh always contains vertices, edges, faces and regions and maintains connectivity between all these entities.

mt-metis

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
cmake
Description:
mt-Metis is a multithreaded multilevel graph partitioning an ordering tool. It is based on the algorithms used in Metis and ParMetis

mujoco

Homepage:
Spack package:
Versions:
2.1.0
Description:
MuJoCo is a physics engine that aims to facilitate research and development in robotics, biomechanics, graphics and animation, and other areas where fast and accurate simulation is needed.

multitail

Homepage:
Spack package:
Versions:
6.4.2
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
MultiTail allows you to monitor logfiles and command output in multiple windows in a terminal, colorize, filter and merge.

multitime

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
gnuconfig
Description:
multitime is, in essence, a simple extension to time which runs a command multiple times and prints the timing means, standard deviations, mins, medians, and maxes having done so. This can give a much better understanding of the command's performance.

multiverso

Homepage:
Spack package:
Versions:
master, 143187, 0.2
Build Dependencies:
cmake, mpi, boost
Link Dependencies:
mpi, boost
Description:
Multiverso is a parameter server based framework for training machine learning models on big data with numbers of machines.

mumax

Homepage:
Spack package:
Versions:
3.10beta, 3.10
Build Dependencies:
cuda, go
Link Dependencies:
cuda
Run Dependencies:
gnuplot
Description:
GPU accelerated micromagnetic simulator.

mummer

Homepage:
Spack package:
Versions:
3.23
Build Dependencies:
gnuplot, perl
Link Dependencies:
gnuplot
Run Dependencies:
perl
Description:
MUMmer is a system for rapidly aligning entire genomes.

mummer4

Homepage:
Spack package:
Versions:
4.0.0rc1, 4.0.0beta2
Build Dependencies:
gnuconfig, perl
Run Dependencies:
perl, awk, sed
Description:
MUMmer is a versatil alignment tool for DNA and protein sequences.

mumps

Homepage:
Spack package:
Versions:
5.4.1, 5.4.0, 5.3.5, 5.3.3, 5.2.0, 5.1.2, 5.1.1, 5.0.2, 5.0.1
Build Dependencies:
scotch, metis, parmetis, blas, lapack, scalapack, mpi
Link Dependencies:
scotch, metis, parmetis, blas, lapack, scalapack, mpi
Description:
MUMPS: a MUltifrontal Massively Parallel sparse direct Solver

munge

Homepage:
Spack package:
Versions:
0.5.14, 0.5.13, 0.5.12, 0.5.11
Build Dependencies:
gnuconfig, openssl, libgcrypt, bzip2
Link Dependencies:
openssl, libgcrypt, bzip2
Description:
MUNGE Uid 'N' Gid Emporium

muparser

Homepage:
Spack package:
Versions:
2.2.6.1, 2.2.5
Build Dependencies:
cmake
Description:
C++ math expression parser library.

muparserx

Homepage:
Spack package:
Versions:
4.0.8
Build Dependencies:
cmake
Description:
A C++ Library for Parsing Expressions with Strings, Complex Numbers, Vectors, Matrices and more.

muscle

Homepage:
Spack package:
Versions:
3.8.1551, 3.8.31
Description:
MUSCLE is one of the best-performing multiple alignment programs according to published benchmark tests, with accuracy and speed that are consistently better than CLUSTALW.

muse

Homepage:
Spack package:
Versions:
1.0-rc
Link Dependencies:
zlib
Description:
Somatic point mutation caller.

music

Homepage:
Spack package:
Versions:
2021-12-01
Build Dependencies:
cmake, fftw, gsl, hdf5
Link Dependencies:
fftw, gsl, hdf5
Description:
MUSIC (Multi-Scale Initial Conditions for Cosmological Simulations) introduced in [Hahn and Abel][1] [1]: https://arxiv.org/abs/1103.6031

musl

Homepage:
Spack package:
Versions:
1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.24, 1.1.23, 1.1.22, 1.1.21, 1.1.20
Description:
Musl is a libc, an implementation of the standard library functionality described in the ISO C and POSIX standards, plus common extensions, intended for use on Linux-based systems. Whereas the kernel (Linux) governs access to hardware, memory, filesystems, and the privileges for accessing these resources, the C library is responsible for providing the actual C function interfaces userspace applications see, and for constructing higher-level buffered stdio, memory allocation management, thread creation and synchronization operations, and so on using the lower-level interfaces the kernel provides, as well as for implementing pure library routines of the C language like strstr, snprintf, strtol, exp, sqrt, etc. Musl is a new general-purpose implementation of the C library. It is lightweight, fast, simple, free, and aims to be correct in the sense of standards-conformance and safety.

muster

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
cmake, boost, mpi
Link Dependencies:
boost, mpi
Description:
The Muster library provides implementations of sequential and parallel K-Medoids clustering algorithms. It is intended as a general framework for parallel cluster analysis, particularly for performance data analysis on systems with very large numbers of processes.

mutationpp

Homepage:
Spack package:
Versions:
1.0.0, 0.3.1
Build Dependencies:
cmake
Description:
Mutation++ is an open-source library originally developed at the von Karman Institute for Fluid Dynamics, designed to couple with conventional computational fluid dynamics codes to provide thermodynamic, transport, chemistry, and energy transfer properties associated with subsonic to hypersonic flows.

mvapich2

Homepage:
Spack package:
Versions:
2.3.7, 2.3.6, 2.3.5, 2.3.4, 2.3.3, 2.3.2, 2.3.1, 2.3rc2, 2.3rc1, 2.3a, 2.3, 2.2, 2.1
Build Dependencies:
gnuconfig, findutils, bison, pkgconfig, zlib, libpciaccess, libxml2, cuda, psm, opa-psm2, rdma-core, libfabric, slurm
Link Dependencies:
zlib, libpciaccess, libxml2, cuda, psm, opa-psm2, rdma-core, libfabric, slurm
Description:
Mvapich2 is a High-Performance MPI Library for clusters with diverse networks (InfiniBand, Omni-Path, Ethernet/iWARP, and RoCE) and computing platforms (x86 (Intel and AMD), ARM and OpenPOWER)

mvapich2-gdr

Homepage:
Spack package:
Versions:
2.3.6, 2.3.5, 2.3.4, 2.3.3
Build Dependencies:
gnuconfig, bison, libpciaccess, libxml2, cuda, pmix, hip
Link Dependencies:
libpciaccess, libxml2, cuda, pmix, hip
Description:
MVAPICH2-GDR is an optimized version of the MVAPICH2 MPI library for GPU-enabled HPC and Deep Learning Applications. MVAPICH2-GDR is not installable from source and is only available through a binary mirror. If you do not find the binary you're looking for, send us an email at mvapich@cse.ohio-state.edu. The binary mirror url is: http://mvapich.cse.ohio-state.edu/download/mvapich/spack- mirror/mvapich2-gdr/

mvapich2x

Homepage:
Spack package:
Versions:
2.3rc3, 2.3
Build Dependencies:
gnuconfig, bison, libpciaccess, libxml2, pmix
Link Dependencies:
libpciaccess, libxml2, pmix
Description:
MVAPICH2-X is the advanced version of the MVAPICH2 MPI library with enhanced features (UMR, ODP, DC, Core-Direct, SHARP, XPMEM), OSU INAM (InifniBand Network Monitoring and Analysis),PGAS (OpenSHMEM, UPC, UPC++, and CAF), and MPI+PGAS programming models with unified communication runtime. MVAPICH2-X is not installable from source and is only available through a binary mirror. If you do not find the binary you're looking for, send us an email at mvapich@cse.ohio-state.edu. The binary mirror url is: http://mvapich.cse.ohio- state.edu/download/mvapich/spack-mirror/mvapich2x/

mxm

Homepage:
Spack package:
Versions:
3.6.3104
Description:
Mellanox Messaging Accelerator (MXM) provides enhancements to parallel communication libraries by fully utilizing the underlying networking infrastructure provided by Mellanox HCA/switch hardware.

mxml

Homepage:
Spack package:
Versions:
2.10, 2.9, 2.8
Build Dependencies:
gnuconfig
Description:
Mini-XML is a small XML library that you can use to read and write XML and XML-like data files in your application without requiring large non- standard libraries.

mxnet

Homepage:
Spack package:
Versions:
master, 1.master, 1.8.0, 1.7.0, 1.6.0, 1.3.0
Build Dependencies:
cuda, cmake, ninja, pkgconfig, blas, cudnn, nccl, opencv, lapack, onednn, python, py-pip, py-wheel, py-contextvars, py-setuptools, py-cython, py-numpy, py-requests, py-graphviz
Link Dependencies:
cuda, blas, cudnn, nccl, opencv, lapack, onednn
Run Dependencies:
python, py-contextvars, py-numpy, py-requests, py-graphviz
Description:
MXNet is a deep learning framework designed for both efficiency and flexibility.

mysql

Homepage:
Spack package:
Versions:
8.0.19, 8.0.18, 8.0.17, 8.0.16, 8.0.15, 8.0.14, 8.0.13, 8.0.12, 8.0.11, 5.7.27, 5.7.26, 5.7.25, 5.7.24, 5.7.23, 5.7.22, 5.7.21, 5.7.20, 5.7.19, 5.7.18, 5.7.17, 5.7.16, 5.7.15, 5.7.14, 5.7.13, 5.7.12, 5.7.11, 5.7.10, 5.7.9, 5.6.44, 5.6.43, 5.5.62
Build Dependencies:
cmake, gmake, pkgconfig, doxygen, boost, rpcsvc-proto, ncurses, openssl, libtirpc, libedit, perl, bison, m4, cyrus-sasl
Link Dependencies:
boost, rpcsvc-proto, ncurses, openssl, libtirpc, cyrus-sasl
Run Dependencies:
libedit
Test Dependencies:
perl
Description:
MySQL is an open source relational database management system.

mysqlpp

Homepage:
Spack package:
Versions:
3.3.0, 3.2.5
Build Dependencies:
gnuconfig, mysql-client
Link Dependencies:
mysql-client
Description:
MySQL++ is a C++ wrapper for MySQL and MariaDB C APIs. It is built on the same principles as the Standard C++ Library to make dealing with the database as easy as dealing with std containers. MySQL++ also provides facilities that let you avoid the most repetitive sorts of SQL within your own code, providing native C++ interfaces for these common tasks.

n2p2

Homepage:
Spack package:
Versions:
2.1.4, 2.1.1, 2.1.0
Build Dependencies:
mpi, blas, gsl, eigen, doxygen, texlive, py-cython, py-breathe, py-sphinx, py-sphinx-rtd-theme, lcov, py-pytest, python
Link Dependencies:
mpi, blas, gsl, eigen, boost
Run Dependencies:
gsl, eigen, py-cython, lcov, py-pytest, py-pytest-cov, py-coverage, py-packaging, python
Description:
N2p2 (The neural network potential package) provides ready-to-use software for high-dimensional neural network potentials in computational physics and chemistry.

nacos

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Nacos is an easy-to-use platform designed for dynamic service discovery and configuration and service management. It helps you to build cloud native applications and microservices platform easily.

nag

Homepage:
Spack package:
Versions:
7.0, 6.2, 6.1
Description:
The NAG Fortran Compiler.

nalu

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, mpi, yaml-cpp, trilinos, tioga
Link Dependencies:
mpi, yaml-cpp, trilinos, tioga
Description:
Nalu: a generalized unstructured massively parallel low Mach flow code designed to support a variety of energy applications of interest built on the Sierra Toolkit and Trilinos solver Tpetra/Epetra stack

nalu-wind

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cuda, cmake, mpi, yaml-cpp, trilinos, openfast, tioga, hypre, kokkos-nvcc-wrapper, trilinos-catalyst-ioss-adapter, fftw, nccmp, netcdf-c, boost
Link Dependencies:
cuda, mpi, yaml-cpp, trilinos, openfast, tioga, hypre, trilinos-catalyst-ioss-adapter, fftw, nccmp, netcdf-c, boost
Description:
Nalu-Wind: Wind energy focused variant of Nalu.

namd

Homepage:
Spack package:
Versions:
master, 2.15a1, 2.14, 2.13, 2.12
Build Dependencies:
cuda, charmpp, fftw, amdfftw, intel-mkl, tcl, python
Link Dependencies:
cuda, charmpp, fftw, amdfftw, intel-mkl, tcl, python
Description:
NAMD is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems.

nano

Homepage:
Spack package:
Versions:
4.9, 4.8, 4.7, 4.6, 4.5, 4.4, 4.3, 4.2, 4.1, 4.0, 3.2, 3.1, 3.0, 2.9.8, 2.9.7, 2.9.6, 2.9.5, 2.9.4, 2.9.3, 2.9.2, 2.9.1, 2.9.0, 2.8.7, 2.8.6, 2.8.5, 2.8.4, 2.8.3, 2.8.2, 2.8.1, 2.8.0, 2.7.5, 2.7.4, 2.7.3, 2.7.2, 2.7.1, 2.7.0, 2.6.3, 2.6.2, 2.6.1
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
Tiny little text editor

nanoflann

Homepage:
Spack package:
Versions:
1.2.3
Build Dependencies:
cmake
Description:
a C++ header-only library for Nearest Neighbor (NN) search wih KD-trees.

nanomsg

Homepage:
Spack package:
Versions:
1.1.5, 1.0.0
Build Dependencies:
cmake
Description:
The nanomsg library is a simple high-performance implementation of several 'scalability protocols'

nanopb

Homepage:
Spack package:
Versions:
0.3.9.1
Build Dependencies:
cmake, protobuf, py-protobuf
Description:
Nanopb is a small code-size Protocol Buffers implementation in ansi C.

nasm

Homepage:
Spack package:
Versions:
2.15.05, 2.14.02, 2.13.03, 2.11.06
Build Dependencies:
perl
Link Dependencies:
perl
Description:
NASM (Netwide Assembler) is an 80x86 assembler designed for portability and modularity. It includes a disassembler as well.

nauty

Homepage:
Spack package:
Versions:
2.6r7
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool, pkgconfig, help2man, zlib, gmp
Link Dependencies:
zlib, gmp
Description:
nauty and Traces are programs for computing automorphism groups of graphsq and digraphs

nbdkit

Homepage:
Spack package:
Versions:
1.23.7, 1.23.6, 1.23.5, 1.23.4, 1.23.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig
Description:
NBD(Network Block Device) is a protocol for accessing Block Devices (hard disks and disk-like things) over a Network. nbdkit is a toolkit for creating NBD servers.

ncbi-magicblast

Homepage:
Spack package:
Versions:
1.5.0, 1.3.0
Build Dependencies:
gnuconfig, cpio, lmdb
Link Dependencies:
lmdb
Description:
Magic-BLAST is a tool for mapping large next-generation RNA or DNA sequencing runs against a whole genome or transcriptome.

ncbi-rmblastn

Homepage:
Spack package:
Versions:
2.11.0, 2.9.0
Build Dependencies:
gnuconfig, cpio, boost, lzo
Link Dependencies:
boost, lzo
Description:
RMBlast search engine for NCBI

ncbi-toolkit

Homepage:
Spack package:
Versions:
22_0_0, 21_0_0
Build Dependencies:
gnuconfig, boost, bzip2, jpeg, libpng, libtiff, libxml2, libxslt, lzo, pcre, giflib, sqlite, zlib, samtools, bamtools
Link Dependencies:
boost, bzip2, jpeg, libpng, libtiff, libxml2, libxslt, lzo, pcre, giflib, sqlite, zlib, samtools, bamtools
Description:
NCBI C++ Toolkit

nccl

Homepage:
Spack package:
Versions:
2.11.4-1, 2.10.3-1, 2.9.9-1, 2.9.8-1, 2.9.6-1, 2.8.4-1, 2.8.3-1, 2.7.8-1, 2.7.6-1, 2.7.5-1, 2.7.3-1, 2.6.4-1, 2.5.7-1, 2.5.6-2, 2.5.6-1, 2.4.8-1, 2.4.6-1, 2.4.2-1, 2.3.7-1, 2.3.5-5, 1.3.4-1, 1.3.0-1
Build Dependencies:
cuda, rdma-core
Link Dependencies:
cuda, rdma-core
Description:
Optimized primitives for collective multi-GPU communication.

nccl-tests

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
cuda, nccl, mpi
Link Dependencies:
cuda, nccl, mpi
Description:
These tests check both the performance and the correctness of NCCL operations.

nccmp

Homepage:
Spack package:
Versions:
1.9.0.1, 1.8.9.0, 1.8.2.0
Build Dependencies:
cmake, netcdf-c
Link Dependencies:
netcdf-c
Description:
Compare NetCDF Files

ncdu

Homepage:
Spack package:
Versions:
1.15.1, 1.14.2, 1.13, 1.12, 1.11, 1.10, 1.9, 1.8, 1.7
Build Dependencies:
ncurses, pkgconfig
Link Dependencies:
ncurses
Description:
Ncdu is a disk usage analyzer with an ncurses interface. It is designed to find space hogs on a remote server where you don't have an entire gaphical setup available, but it is a useful tool even on regular desktop systems. Ncdu aims to be fast, simple and easy to use, and should be able to run in any minimal POSIX-like environment with ncurses installed.

ncftp

Homepage:
Spack package:
Versions:
3.2.6
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
NcFTP Client is a set of application programs implementing the File Transfer Protocol.

ncio

Homepage:
Spack package:
Versions:
1.1.0, 1.0.0
Build Dependencies:
cmake, mpi, netcdf-fortran
Link Dependencies:
mpi, netcdf-fortran
Description:
This is a library used by NCEP GSI system to read the GFS forecast files for use in data assimilation. This is part of NOAA's NCEPLIBS project.

ncl

Homepage:
Spack package:
Versions:
6.6.2, 6.5.0, 6.4.0
Build Dependencies:
jpeg, netcdf-c, cairo, bison, flex, iconv, tcsh, makedepend, curl, libx11, libxaw, libxmu, pixman, bzip2, freetype, fontconfig, zstd, hdf5, szip, hdf, gdal, udunits
Link Dependencies:
jpeg, netcdf-c, cairo, flex, iconv, tcsh, curl, libx11, libxaw, libxmu, pixman, bzip2, freetype, fontconfig, zstd, hdf5, szip, hdf, gdal, udunits
Run Dependencies:
esmf
Description:
NCL is an interpreted language designed specifically for scientific data analysis and visualization. Supports NetCDF 3/4, GRIB 1/2, HDF 4/5, HDF- EOD 2/5, shapefile, ASCII, binary. Numerous analysis functions are built-in.

nco

Homepage:
Spack package:
Versions:
5.0.1, 4.9.3, 4.9.2, 4.9.1, 4.9.0, 4.8.1, 4.8.0, 4.7.9, 4.6.7, 4.6.6, 4.6.5, 4.6.4, 4.6.3, 4.6.2, 4.6.1, 4.5.5
Build Dependencies:
gnuconfig, netcdf-c, antlr, gsl, udunits, flex, bison, texinfo
Link Dependencies:
netcdf-c, antlr, gsl, udunits
Description:
The NCO toolkit manipulates and analyzes data stored in netCDF- accessible formats

ncompress

Homepage:
Spack package:
Versions:
4.2.4.6, 4.2.4.5
Description:
This is (N)compress. It is an improved version of compress 4.1.

ncurses

Homepage:
Spack package:
Versions:
6.2, 6.1, 6.0, 5.9
Build Dependencies:
gnuconfig, pkgconfig
Description:
The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.

ncview

Homepage:
Spack package:
Versions:
2.1.8, 2.1.7
Build Dependencies:
gnuconfig, netcdf-c, udunits, libpng, libxaw
Link Dependencies:
netcdf-c, udunits, libpng, libxaw
Description:
Simple viewer for NetCDF files.

ndiff

Homepage:
Spack package:
Versions:
2.00, 1.00
Description:
The ndiff tool is a binary utility that compares putatively similar files while ignoring small numeric differernces. This utility is most often used to compare files containing a lot of floating-point numeric data that may be slightly different due to numeric error.

neartree

Homepage:
Spack package:
Versions:
3.1
Build Dependencies:
libtool, cvector
Link Dependencies:
cvector
Description:
This is a release of an API for finding nearest neighbors among points in spaces of arbitrary dimensions.

nek5000

Homepage:
Spack package:
Versions:
develop, 19.0, 17.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
A fast and scalable high-order solver for computational fluid dynamics

nekbone

Homepage:
Spack package:
Versions:
develop, 17.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
NEK5000 emulation software called NEKbone. Nekbone captures the basic structure and user interface of the extensive Nek5000 software. Nek5000 is a high order, incompressible Navier-Stokes solver based on the spectral element method.

nekcem

Homepage:
Spack package:
Versions:
develop, 7332619, 0b8bedd, c8db04b
Build Dependencies:
mpi, blas, lapack
Link Dependencies:
mpi, blas, lapack
Description:
Spectral-element solver for Maxwell's equations, drift-diffusion equations, and more.

neko

Homepage:
Spack package:
Versions:
develop, 0.3.2, 0.3.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gnuconfig, autoconf, automake, libtool, m4, pkgconfig, parmetis, libxsmm, mpi, blas, lapack
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, parmetis, libxsmm, mpi, blas, lapack
Description:
Neko: A modern, portable, and scalable framework for high-fidelity computational fluid dynamics

nekrs

Homepage:
Spack package:
Versions:
21.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, git, cmake
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, git, cmake
Description:
nekRS is an open-source Navier Stokes solver based on the spectral element method targeting classical processors and hardware accelerators like GPUs

nektar

Homepage:
Spack package:
Versions:
5.0.0, 4.4.1
Build Dependencies:
cmake, blas, lapack, boost, tinyxml, mpi, fftw, arpack-ng, hdf5, scotch
Link Dependencies:
blas, lapack, boost, tinyxml, mpi, fftw, arpack-ng, hdf5, scotch
Description:
Nektar++: Spectral/hp Element Framework

nektools

Homepage:
Spack package:
Versions:
develop, 19.0, 17.0
Build Dependencies:
libx11, libxt, xproto, visit
Link Dependencies:
libx11, libxt, xproto, visit
Description:
Tools required by Nek5000

nemsio

Homepage:
Spack package:
Versions:
2.5.4, 2.5.3, 2.5.2
Build Dependencies:
cmake, bacio, mpi, w3nco, w3emc
Link Dependencies:
bacio, mpi, w3nco, w3emc
Description:
The NOAA Environmental Modeling System I/O (NEMSIO) library. The basic functions it provides are to read and write data sets for all the NEMS applications. This is part of NOAA's NCEPLIBS project.

nemsiogfs

Homepage:
Spack package:
Versions:
2.5.3
Build Dependencies:
cmake, nemsio
Link Dependencies:
nemsio
Description:
Performs I/O for the NEMS-GFS model. This is part of NOAA's NCEPLIBS project.

neo4j

Homepage:
Spack package:
Versions:
4.0.3, 4.0.1, 4.0.0, 3.5.16
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Neo4j is the world's leading Graph Database. It is a high performance graph store with all the features expected of a mature and robust database, like a friendly query language and ACID transactions. The programmer works with a flexible network structure of nodes and relationships rather than static tables--yet enjoys all the benefits of enterprise-quality database. For many applications, Neo4j offers orders of magnitude performance benefits compared to relational DBs.

neovim

Homepage:
Spack package:
Versions:
master, stable, 0.7.0, 0.6.1, 0.6.0, 0.5.1, 0.5.0, 0.4.4, 0.4.3, 0.3.4, 0.3.1, 0.3.0, 0.2.2, 0.2.1, 0.2.0
Build Dependencies:
cmake, lua-lang, luajit, lua, pkgconfig, gettext, gperf, libiconv, libtermkey, libuv, libluv, libvterm, msgpack-c, unibilium, tree-sitter
Link Dependencies:
cmake, lua-lang, luajit, lua, lua-ffi, lua-bitlib, gettext, gperf, jemalloc, lua-lpeg, lua-mpack, libiconv, libtermkey, libuv, libluv, libvterm, msgpack-c, unibilium, tree-sitter
Run Dependencies:
lua-ffi
Description:
Neovim: Vim-fork focused on extensibility and usability

nest

Homepage:
Spack package:
Versions:
master, 3.0, 2.20.1
Build Dependencies:
cmake, python, py-numpy, py-cython, py-setuptools, mpi, doxygen, gsl, readline, libtool, pkgconfig
Link Dependencies:
mpi, gsl, readline, libtool
Run Dependencies:
python, py-numpy, py-scipy
Test Dependencies:
py-nose
Description:
NEST is a simulator for spiking neural network models It focuses on the dynamics, size and structure of neural systems rather than on the exact morphology of individual neurons.

net-snmp

Homepage:
Spack package:
Versions:
5.9.1, 5.9
Build Dependencies:
gnuconfig, perl-extutils-makemaker, ncurses
Link Dependencies:
perl-extutils-makemaker, ncurses
Description:
A SNMP application library, tools and daemon.

netcdf-c

Homepage:
Spack package:
Versions:
main, 4.8.1, 4.8.0, 4.7.4, 4.7.3, 4.7.2, 4.7.1, 4.7.0, 4.6.3, 4.6.2, 4.6.1, 4.6.0, 4.5.0, 4.4.1.1, 4.4.1, 4.4.0, 4.3.3.1, 4.3.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, hdf, curl, parallel-netcdf, mpi, zlib, hdf5
Link Dependencies:
hdf, curl, parallel-netcdf, mpi, zlib, hdf5
Description:
NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.

netcdf-cxx

Homepage:
Spack package:
Versions:
4.2
Build Dependencies:
gnuconfig, netcdf-c
Link Dependencies:
netcdf-c
Description:
Deprecated C++ compatibility bindings for NetCDF. These do NOT read or write NetCDF-4 files, and are no longer maintained by Unidata. Developers should migrate to current NetCDF C++ bindings, in Spack package netcdf-cxx4.

netcdf-cxx4

Homepage:
Spack package:
Versions:
4.3.1, 4.3.0
Build Dependencies:
gnuconfig, netcdf-c, doxygen
Link Dependencies:
netcdf-c
Description:
NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.

netcdf-fortran

Homepage:
Spack package:
Versions:
4.5.4, 4.5.3, 4.5.2, 4.4.5, 4.4.4, 4.4.3
Build Dependencies:
gnuconfig, netcdf-c, doxygen
Link Dependencies:
netcdf-c
Description:
NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.

netdata

Homepage:
Spack package:
Versions:
1.31.0, 1.30.1, 1.22.1
Build Dependencies:
gnuconfig, pkgconfig, json-c, judy, libelf, libmnl, libuv, lz4, openssl, python, uuid, zlib
Link Dependencies:
json-c, judy, libelf, libmnl, libuv, lz4, openssl, uuid, zlib
Run Dependencies:
python
Description:
Real-time performance monitoring, done right!

netgauge

Homepage:
Spack package:
Versions:
2.4.6
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Netgauge is a high-precision network parameter measurement tool. It supports benchmarking of many different network protocols and communication patterns. The main focus lies on accuracy, statistical analysis and easy extensibility.

netgen

Homepage:
Spack package:
Versions:
5.3.1
Build Dependencies:
gnuconfig, zlib, mpi, oce, metis
Link Dependencies:
zlib, mpi, oce, metis
Description:
NETGEN is an automatic 3d tetrahedral mesh generator. It accepts input from constructive solid geometry (CSG) or boundary representation (BRep) from STL file format. The connection to a geometry kernel allows the handling of IGES and STEP files. NETGEN contains modules for mesh optimization and hierarchical mesh refinement.

netkit-ftp

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig
Description:
netkit-ftp is the original file transfer client program for Linux.

netlib-lapack

Homepage:
Spack package:
Versions:
3.10.1, 3.10.0, 3.9.1, 3.9.0, 3.8.0, 3.7.1, 3.7.0, 3.6.1, 3.6.0, 3.5.0, 3.4.2, 3.4.1, 3.4.0, 3.3.1
Build Dependencies:
cmake, blas, netlib-xblas
Link Dependencies:
blas, netlib-xblas
Test Dependencies:
python
Description:
LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.

netlib-scalapack

Homepage:
Spack package:
Versions:
2.2.0, 2.1.0, 2.0.2, 2.0.1, 2.0.0
Build Dependencies:
cmake, mpi, lapack, blas
Link Dependencies:
mpi, lapack, blas
Description:
ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines

netlib-xblas

Homepage:
Spack package:
Versions:
1.0.248
Build Dependencies:
gnuconfig
Description:
XBLAS is a reference implementation for extra precision BLAS. XBLAS is a reference implementation for the dense and banded BLAS routines, along with extended and mixed precision version. Extended precision is only used internally; input and output arguments remain the same as in the existing BLAS. Extra precisions is implemented as double-double (i.e., 128-bit total, 106-bit significand). Mixed precision permits some input/output arguments of different types (mixing real and complex) or precisions (mixing single and double). This implementation is proof of concept, and no attempt was made to optimize performance; performance should be as good as straightforward but careful code written by hand.

netpbm

Homepage:
Spack package:
Versions:
10.73.35
Build Dependencies:
perl, gmake, pkgconfig, zlib, jpeg, libtiff, libpng, libxml2, flex, jasper, jbigkit, libx11
Link Dependencies:
zlib, jpeg, libtiff, libpng, libxml2, jasper, jbigkit, libx11
Run Dependencies:
perl, ghostscript, flex
Description:
Netpbm - graphics tools and converters. A whole bunch of utilities for primitive manipulation of graphic images. Wide array of converters from one graphics format to another. E.g. from g3 fax format to jpeg. Many basic graphics editing tools such as magnifying and cropping.

netperf

Homepage:
Spack package:
Versions:
2.7.0, 2.6.0, 2.5.0
Build Dependencies:
gnuconfig
Description:
Netperf is a benchmark that can be used to measure the performance of many different types of networking. It provides tests for both unidirectional throughput, and end-to-end latency.

nettle

Homepage:
Spack package:
Versions:
3.4.1, 3.4, 3.3, 3.2, 2.7.1, 2.7
Build Dependencies:
gnuconfig, gmp, m4
Link Dependencies:
gmp
Description:
The Nettle package contains the low-level cryptographic library that is designed to fit easily in many contexts.

neuron

Homepage:
Spack package:
Versions:
develop, 8.0.0, 7.8.2, 7.8.1
Build Dependencies:
cmake, bison, flex, py-cython, gettext, mpi, ncurses, python, py-pytest, py-mpi4py, readline, caliper
Link Dependencies:
gettext, mpi, ncurses, python, py-pytest, py-mpi4py, readline, caliper
Run Dependencies:
py-numpy
Description:
NEURON is a simulation environment for single and networks of neurons. NEURON is a simulation environment for modeling individual and networks of neurons. NEURON models individual neurons via the use of sections that are automatically subdivided into individual compartments, instead of requiring the user to manually create compartments.

newt

Homepage:
Spack package:
Versions:
0.52.21, 0.52.20, 0.52.19
Build Dependencies:
gnuconfig, slang, popt
Link Dependencies:
slang, popt
Description:
A library for text mode user interfaces.

nextflow

Homepage:
Spack package:
Versions:
22.04.3, 22.04.1, 22.04.0, 21.10.6, 21.10.1, 21.10.0, 21.04.3, 20.10.0, 20.07.1, 20.04.1, 20.01.0, 19.10.0, 19.07.0, 19.04.1, 0.25.6, 0.24.1, 0.23.3, 0.21.0, 0.20.1, 0.17.3
Build Dependencies:
java
Link Dependencies:
java
Description:
Data-driven computational pipelines.

nfft

Homepage:
Spack package:
Versions:
3.4.1, 3.3.2
Build Dependencies:
gnuconfig, fftw
Link Dependencies:
fftw
Description:
NFFT is a C subroutine library for computing the nonequispaced discrete Fourier transform (NDFT) in one or more dimensions, of arbitrary input size, and of complex data.

nfs-ganesha

Homepage:
Spack package:
Versions:
3.2, 3.1, 3.0.3, 3.0
Build Dependencies:
cmake, bison, flex, py-stsci-distutils, userspace-rcu, ntirpc, krb5
Link Dependencies:
userspace-rcu, ntirpc, krb5
Description:
NFS-Ganesha is an NFSv3,v4,v4.1 fileserver that runs in user mode on most UNIX/Linux systems. It also supports the 9p.2000L protocol.

nfs-utils

Homepage:
Spack package:
Versions:
2.4.2, 2.4.1, 2.3.4
Build Dependencies:
gnuconfig, pkgconfig, libtirpc, libevent, libdmx, lvm2, keyutils, sqlite, uuid, util-linux, gettext
Link Dependencies:
libtirpc, libevent, libdmx, lvm2, keyutils, sqlite, uuid, util-linux, gettext
Description:
The NFS Utilities package contains the userspace server and client tools necessary to use the kernel's NFS abilities. NFS is a protocol that allows sharing file systems over the network.

nghttp2

Homepage:
Spack package:
Versions:
1.44.0, 1.26.0
Build Dependencies:
gnuconfig, pkgconfig
Description:
nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.

nginx

Homepage:
Spack package:
Versions:
1.21.3, 1.15.6, 1.13.8, 1.12.0
Build Dependencies:
gnuconfig, openssl, pcre, zlib
Link Dependencies:
openssl, pcre, zlib
Description:
nginx [engine x] is an HTTP and reverse proxy server, a mail proxy server, and a generic TCP/UDP proxy server, originally written by Igor Sysoev.

ngmerge

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Merging paired-end reads and removing adapters.

ngmlr

Homepage:
Spack package:
Versions:
0.2.5
Build Dependencies:
cmake, sse2neon
Link Dependencies:
zlib, sse2neon
Description:
Ngmlr is a long-read mapper designed to align PacBilo or Oxford Nanopore to a reference genome with a focus on reads that span structural variations.

ngspice

Homepage:
Spack package:
Versions:
master, 34, 33, 32, 31, 30, 29, 27
Build Dependencies:
gnuconfig, fftw-api, readline, bison, flex, freetype, libxrender, fontconfig, libxft, libxext, libxmu, libxaw, libx11, autoconf, automake, libtool, adms
Link Dependencies:
fftw-api, readline, freetype, libxrender, fontconfig, libxft, libxext, libxmu, libxaw, libx11, adms
Description:
ngspice is the open source spice simulator for electric and electronic circuits.

nicstat

Homepage:
Spack package:
Versions:
1.95
Description:
Nicstat is a Solaris and Linux command-line that prints out network statistics for all network interface cards (NICs), including packets, kilobytes per second, average packet sizes and more.

nim

Homepage:
Spack package:
Versions:
1.4.4, 1.4.2, 0.20.0, 0.19.9, 0.19.6
Build Dependencies:
pcre, openssl
Link Dependencies:
pcre, openssl
Description:
Nim is a statically typed compiled systems programming language. It combines successful concepts from mature languages like Python, Ada and Modula.

ninja

Homepage:
Spack package:
Versions:
master, 1.10.2, 1.10.1, 1.10.0, 1.9.0, 1.8.2, 1.7.2, 1.6.0, kitware
Build Dependencies:
python
Description:
Ninja is a small build system with a focus on speed. It differs from other build systems in two major respects: it is designed to have its input files generated by a higher-level build system, and it is designed to run builds as fast as possible.

ninja-fortran

Homepage:
Spack package:
Versions:
1.9.0.2.g99df1, 1.9.0.1.g5b44b, 1.9.0.0.gad558, 1.8.2.2.g81279, 1.8.2.1.g3bbbe, 1.8.2.0.g972a7, 1.7.2.1.gaad58, 1.7.2.0.gcc0ea, 1.7.1.0.g7ca7f
Build Dependencies:
python
Description:
A Fortran capable fork of ninja.

nix

Homepage:
Spack package:
Versions:
2.3.15, 2.2.1, 2.1.3, 2.0.4
Build Dependencies:
gnuconfig, autoconf-archive, autoconf, automake, pkgconfig, bison, flex, libtool, libxml2, libxslt, boost, brotli, editline, bzip2, curl, libseccomp, libsodium, openssl, sqlite, xz
Link Dependencies:
boost, brotli, editline, bzip2, curl, libseccomp, libsodium, openssl, sqlite, xz
Description:
Nix, the purely functional package manager

njet

Homepage:
Spack package:
Versions:
2.1.1, 2.0.0
Build Dependencies:
gnuconfig, qd
Link Dependencies:
qd
Description:
NJet is a library for multi-parton one-loop matrix elements in massless QCD.

nlcglib

Homepage:
Spack package:
Versions:
develop, master, 0.9
Build Dependencies:
cuda, cmake, lapack, kokkos, kokkos-nvcc-wrapper
Link Dependencies:
cuda, lapack, kokkos, kokkos-nvcc-wrapper
Description:
Nonlinear CG methods for wave-function optimization in DFT.

nlohmann-json

Homepage:
Spack package:
Versions:
3.10.5, 3.10.4, 3.10.3, 3.10.2, 3.10.0, 3.9.1, 3.9.0, 3.8.0, 3.7.2, 3.7.0, 3.6.1, 3.5.0, 3.4.0, 3.3.0, 3.2.0, 3.1.2, 3.1.1
Build Dependencies:
cmake
Description:
JSON for Modern C++

nlohmann-json-schema-validator

Homepage:
Spack package:
Versions:
master, 2.1.0, 2.0.0, 1.0.0
Build Dependencies:
cmake, nlohmann-json
Link Dependencies:
nlohmann-json
Description:
JSON schema validator for JSON for Modern C++

nlopt

Homepage:
Spack package:
Versions:
master, 2.7.0, 2.6.2, 2.6.1, 2.6.0, 2.5.0
Build Dependencies:
cmake, python, py-numpy, swig, guile, octave, matlab
Link Dependencies:
swig, guile, octave, matlab
Run Dependencies:
python, py-numpy
Description:
NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms.

nmap

Homepage:
Spack package:
Versions:
7.92, 7.91, 7.90, 7.80, 7.70, 7.60, 7.50, 7.40, 7.31, 7.30, 7.12, 7.01, 6.40, 6.01
Build Dependencies:
gnuconfig, openssl
Link Dependencies:
openssl
Description:
Nmap ("Network Mapper") is a free and open source (license) utility for network discovery and security auditing. It also provides ncat an updated nc

nn-c

Homepage:
Spack package:
Versions:
master, 1.86.2
Build Dependencies:
gnuconfig
Description:
nn: Natural Neighbours interpolation. nn is a C code for Natural Neighbours interpolation of 2D scattered data. It provides a C library and a command line utility nnbathy.

nnpack

Homepage:
Spack package:
Versions:
master, 2020-12-21, 2019-10-07, 2019-03-23, 2018-09-03, 2018-05-21, 2018-04-05
Build Dependencies:
cmake, ninja, python, py-setuptools
Description:
Acceleration package for neural networks on multi-core CPUs.

nnvm

Homepage:
Spack package:
Versions:
master, 20170418
Build Dependencies:
cmake, dmlc-core
Link Dependencies:
dmlc-core
Description:
nnvm is a modular, decentralized and lightweight part to help build deep learning libraries.

node-js

Homepage:
Spack package:
Versions:
15.3.0, 14.16.1, 14.15.1, 14.13.0, 14.10.0, 13.8.0, 13.5.0, 12.18.4, 12.18.3, 12.16.0, 12.14.0, 11.1.0, 10.13.0, 8.11.4, 8.9.1, 7.1.0, 6.3.0, 6.2.2
Build Dependencies:
gmake, libtool, pkgconfig, python, icu4c, openssl, zlib
Link Dependencies:
icu4c, openssl, zlib
Description:
Node.js is a JavaScript runtime built on Chrome's V8 JavaScript engine.

notmuch

Homepage:
Spack package:
Versions:
0.23.7
Build Dependencies:
gnuconfig, zlib, talloc, gmime, xapian-core
Link Dependencies:
zlib, talloc, gmime, xapian-core
Description:
Notmuch is a mail indexer. Essentially, is a very thin front end on top of xapian.

npb

Homepage:
Spack package:
Versions:
3.4.1, 3.3.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
The NAS Parallel Benchmarks (NPB) are a small set of programs designed to help evaluate the performance of parallel supercomputers. The benchmarks are derived from computational fluid dynamics (CFD) applications and consist of five kernels and three pseudo-applications in the original "pencil-and-paper" specification (NPB 1). The benchmark suite has been extended to include new benchmarks for unstructured adaptive mesh, parallel I/O, multi-zone applications, and computational grids. Problem sizes in NPB are predefined and indicated as different classes. Reference implementations of NPB are available in commonly-used programming models like MPI and OpenMP (NPB 2 and NPB 3).

npm

Homepage:
Spack package:
Versions:
6.14.9, 6.14.8, 6.13.7, 6.13.4, 3.10.9, 3.10.5
Build Dependencies:
node-js
Run Dependencies:
node-js
Description:
npm: A package manager for javascript.

npth

Homepage:
Spack package:
Versions:
1.6, 1.5, 1.4
Build Dependencies:
gnuconfig
Description:
nPth is a library to provide the GNU Pth API and thus a non-preemptive threads implementation.

ns-3-dev

Homepage:
Spack package:
Versions:
3.34, 3.33, 3.32, 3.31, 3.30.1, 3.30, 3.29, 3.28, 3.27
Build Dependencies:
python, helics, boost, pkgconfig
Link Dependencies:
helics, boost
Description:
ns-3 is a discrete-event network simulator, targeted primarily for research and educational use

nseg

Homepage:
Spack package:
Versions:
1.0
Description:
NSEG - Low complexity sequence identification

nsimd

Homepage:
Spack package:
Versions:
3.0.1, 3.0, 2.2, 2.1, 1.0
Build Dependencies:
cmake, python, py-chardet, py-requests
Description:
NSIMD is a vectorization library that abstracts SIMD programming. It was designed to exploit the maximum power of processors at a low development cost.

nspr

Homepage:
Spack package:
Versions:
4.32, 4.31, 4.13.1
Build Dependencies:
gnuconfig, perl
Description:
Netscape Portable Runtime (NSPR) provides a platform-neutral API for system level and libc-like functions.

nss

Homepage:
Spack package:
Versions:
3.75, 3.73, 3.67
Build Dependencies:
nspr, sqlite, zlib
Link Dependencies:
nspr, sqlite, zlib
Description:
Network Security Services (NSS) is a set of libraries designed to support cross-platform development of security-enabled client and server applications. Applications built with NSS can support SSL v3, TLS, PKCS #5, PKCS #7, PKCS #11, PKCS #12, S/MIME, X.509 v3 certificates, and other security standards.

ntirpc

Homepage:
Spack package:
Versions:
3.2, 3.1, 3.0, 1.8.0, 1.7.3
Build Dependencies:
cmake, libnsl, userspace-rcu
Link Dependencies:
libnsl, userspace-rcu
Description:
New development on tirpc

ntl

Homepage:
Spack package:
Versions:
11.5.1, 11.5.0, 11.4.4
Build Dependencies:
gmp, perl
Link Dependencies:
gmp
Description:
NTL -- a library for doing number theory NTL is open-source software distributed under the terms of the GNU Lesser General Public License (LGPL) version 2.1 or later. See the file doc/copying.txt for complete details on the licensing of NTL. Documentation is available in the file doc/tour.html, which can be viewed with a web browser.

ntpoly

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
cmake, mpi
Link Dependencies:
blas, mpi
Description:
NTPoly - parallel library for computing matrix functions. NTPoly is a library for computing the functions of sparse, hermitian matrices based on polynomial expansions. For sufficiently sparse matrices, most of the matrix functions in NTPoly can be computed in linear time.

numactl

Homepage:
Spack package:
Versions:
2.0.14, 2.0.12, 2.0.11
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
NUMA support for Linux

numamma

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
cmake, numap, libbacktrace, numactl, libelf
Link Dependencies:
numap, libbacktrace, numactl, libelf
Description:
NumaMMa is a lightweight memory profiler that reports the memory access patterns of applications.

numap

Homepage:
Spack package:
Versions:
master, 2019-09-06
Build Dependencies:
cmake, libpfm4
Link Dependencies:
libpfm4
Description:
Numap is a Linux library dedicated to memory profiling based on hardware performance monitoring unit (PMU).

numdiff

Homepage:
Spack package:
Versions:
5.9.0, 5.8.1
Build Dependencies:
gnuconfig, gettext, gmp
Link Dependencies:
gettext, gmp
Description:
Numdiff is a little program that can be used to compare putatively similar files line by line and field by field, ignoring small numeric differences or/and different numeric formats.

nut

Homepage:
Spack package:
Versions:
master, 0.1.1
Build Dependencies:
cmake, random123
Link Dependencies:
random123
Description:
NuT is Monte Carlo code for neutrino transport and is a C++ analog to the Haskell McPhD code. NuT is principally aimed at exploring on-node parallelism and performance issues.

nvdimmsim

Homepage:
Spack package:
Versions:
2.0.0
Description:
NVDIMMSim is a cycle-accurate non-volatile memory simulator for devices such as NAND flash

nvhpc

Homepage:
Spack package:
Versions:
22.3, 22.2, 22.1, 21.11, 21.9, 21.7, 21.5, 21.3, 21.2, 21.1, 20.11, 20.9, 20.7
Description:
The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and tools essential to maximizing developer productivity and the performance and portability of HPC applications. The NVIDIA HPC SDK C, C++, and Fortran compilers support GPU acceleration of HPC modeling and simulation applications with standard C++ and Fortran, OpenACC directives, and CUDA. GPU-accelerated math libraries maximize performance on common HPC algorithms, and optimized communications libraries enable standards-based multi-GPU and scalable systems programming. Performance profiling and debugging tools simplify porting and optimization of HPC applications.

nvptx-tools

Homepage:
Spack package:
Versions:
2021-05-21, 2018-03-01
Build Dependencies:
gnuconfig, binutils, cuda
Link Dependencies:
binutils, cuda
Description:
nvptx-tools: A collection of tools for use with nvptx-none GCC toolchains. These tools are necessary when building a version of GCC that enables offloading of OpenMP/OpenACC code to NVIDIA GPUs.

nvshmem

Homepage:
Spack package:
Versions:
2.2.1-0, 2.1.2-0, 2.0.3-0
Build Dependencies:
cuda, mpi, ucx, gdrcopy, nccl
Link Dependencies:
cuda, mpi, ucx, gdrcopy, nccl
Description:
NVSHMEM is a parallel programming interface based on OpenSHMEM that provides efficient and scalable communication for NVIDIA GPU clusters. NVSHMEM creates a global address space for data that spans the memory of multiple GPUs and can be accessed with fine-grained GPU-initiated operations, CPU-initiated operations, and operations on CUDA streams.

nvtop

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0, 1.2.2, 1.2.1
Build Dependencies:
cuda, cmake, ncurses, libdrm
Link Dependencies:
cuda, ncurses, libdrm
Description:
Nvtop stands for Neat Videocard TOP, a (h)top like task monitor for AMD and NVIDIA GPUS. It can handle multiple GPUs and print information about them in a htop familiar way

nwchem

Homepage:
Spack package:
Versions:
7.0.2, 7.0.0, 6.8.1
Build Dependencies:
blas, lapack, mpi, scalapack, fftw-api, python
Link Dependencies:
blas, lapack, mpi, scalapack, fftw-api, python
Run Dependencies:
python
Description:
High-performance computational chemistry software

nyancat

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1, 1.5.0, 1.4.5
Description:
Nyancat in your terminal, rendered through ANSI escape sequences.

ocaml

Homepage:
Spack package:
Versions:
4.13.1, 4.12.0, 4.11.0, 4.10.0, 4.09.0, 4.08.1, 4.08.0, 4.07.1, 4.07.0, 4.06.1, 4.06.0, 4.03.0
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
OCaml is an industrial strength programming language supporting functional, imperative and object-oriented styles

ocamlbuild

Homepage:
Spack package:
Versions:
master, 0.14.0, 0.13.1
Build Dependencies:
ocaml
Link Dependencies:
ocaml
Description:
OCamlbuild is a generic build tool, that has built-in rules for building OCaml library and programs.

occa

Homepage:
Spack package:
Versions:
develop, 1.2.0, 1.1.0, 1.0.9, 1.0.8, 1.0.0-alpha.5, 0.2.0, 0.1.0
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
OCCA is an open-source (MIT license) library used to program current multi-core/many-core architectures. Devices (such as CPUs, GPUs, Intel's Xeon Phi, FPGAs, etc) are abstracted using an offload-model for application development and programming for the devices is done through a C-based (OKL) or Fortran-based kernel language (OFL). OCCA gives developers the ability to target devices at run-time by using run-time compilation for device kernels.

oce

Homepage:
Spack package:
Versions:
0.18.3, 0.18.2, 0.18.1, 0.18, 0.17.2, 0.17.1, 0.17, 0.16.1, 0.16
Build Dependencies:
cmake, tbb
Link Dependencies:
tbb
Description:
Open CASCADE Community Edition: patches/improvements/experiments contributed by users over the official Open CASCADE library.

oci-systemd-hook

Homepage:
Spack package:
Versions:
0.2.0, 0.1.18, 0.1.5
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, yajl, uuid, util-linux, go-md2man
Link Dependencies:
gettext, yajl, uuid, util-linux, go-md2man
Description:
OCI systemd hook enables users to run systemd in docker and OCI compatible runtimes such as runc without requiring --privileged flag.

ocl-icd

Homepage:
Spack package:
Versions:
2.3.1, 2.3.0, 2.2.14, 2.2.13, 2.2.12, 2.2.11, 2.2.10, 2.2.9, 2.2.8, 2.2.7, 2.2.6, 2.2.5, 2.2.4, 2.2.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, ruby, asciidoc-py3, xmlto, opencl-headers
Link Dependencies:
opencl-headers
Description:
This package aims at creating an Open Source alternative to vendor specific OpenCL ICD loaders.

oclgrind

Homepage:
Spack package:
Versions:
master, 19.10
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
An OpenCL device simulator and debugger.

oclint

Homepage:
Spack package:
Versions:
0.13
Build Dependencies:
python, py-argparse, git, subversion, cmake, ninja, llvm
Link Dependencies:
llvm
Description:
OClint: a static analysis tool for C, C++, and Objective-C code OCLint is a static code analysis tool for improving quality and reducing defects by inspecting C, C++ and Objective-C code and looking for potential problems

oclock

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxmu, libxext, libxt, libxkbfile, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, libxext, libxt, libxkbfile
Description:
oclock is a simple analog clock using the SHAPE extension to make a round (possibly transparent) window.

octa

Homepage:
Spack package:
Versions:
8.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, jogl, python, py-numpy, py-scipy, py-numba
Link Dependencies:
libjpeg, libpng, zlib, jogl, python, py-numpy, py-scipy, py-numba
Run Dependencies:
gnuplot
Description:
OCTA is an integrated simulation system for soft materials.

octave

Homepage:
Spack package:
Versions:
7.1.0, 6.4.0, 6.3.0, 6.2.0, 6.1.0, 5.2.0, 5.1.0, 4.4.1, 4.4.0, 4.2.2, 4.2.1, 4.2.0, 4.0.2, 4.0.0
Build Dependencies:
gnuconfig, blas, lapack, pcre, pkgconfig, texinfo, readline, bzip2, arpack-ng, curl, fftw, fltk, fontconfig, freetype, glpk, gl2ps, gnuplot, imagemagick, hdf5, java, llvm, gl, qhull, qrupdate, qscintilla, qt, suite-sparse, zlib
Link Dependencies:
blas, lapack, pcre, readline, bzip2, arpack-ng, curl, fftw, fltk, fontconfig, freetype, glpk, gl2ps, gnuplot, imagemagick, hdf5, java, llvm, gl, qhull, qrupdate, qscintilla, qt, suite-sparse, zlib
Description:
GNU Octave is a high-level language, primarily intended for numerical computations. It provides a convenient command line interface for solving linear and nonlinear problems numerically, and for performing other numerical experiments using a language that is mostly compatible with Matlab. It may also be used as a batch-oriented language.

octave-arduino

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
octave, octave-instrctl
Link Dependencies:
octave-instrctl
Run Dependencies:
octave
Description:
Provides an Octave look-alike implementation of the Arduino extension for Matlab.

octave-control

Homepage:
Spack package:
Versions:
3.2.0
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Computer-Aided Control System Design (CACSD) Tools for GNU Octave, based on the proven SLICOT Library

octave-gsl

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
octave, gsl
Link Dependencies:
gsl
Run Dependencies:
octave
Description:
Octave bindings to the GNU Scientific Library

octave-instrctl

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Instrument-Control is a package for interfacing the outside world of hardware via Serial, i2c or Parallel interfaces.

octave-io

Homepage:
Spack package:
Versions:
2.6.3, 2.6.2, 2.6.1, 2.6.0, 2.2.7
Build Dependencies:
octave
Run Dependencies:
octave
Description:
The IO package is part of the Octave Forge project and provides input/output from/in external formats.

octave-optim

Homepage:
Spack package:
Versions:
1.6.1, 1.5.2
Build Dependencies:
octave, octave-struct, octave-statistics
Link Dependencies:
octave-struct, octave-statistics
Run Dependencies:
octave
Description:
Non-linear optimization toolkit for Octave.

octave-quaternion

Homepage:
Spack package:
Versions:
2.4.0, 2.2.2
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Quaternion package for GNU Octave, includes a quaternion class with overloaded operators.

octave-signal

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
octave, octave-control
Link Dependencies:
octave-control
Run Dependencies:
octave
Description:
Signal processing tools, including filtering, windowing and display functions.

octave-splines

Homepage:
Spack package:
Versions:
1.3.3, 1.3.1
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Additional spline functions.

octave-statistics

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
octave, octave-io
Link Dependencies:
octave-io
Run Dependencies:
octave
Description:
Additional statistics functions for Octave.

octave-struct

Homepage:
Spack package:
Versions:
1.0.17, 1.0.14
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Additional structure manipulation functions for Octave.

octave-symbolic

Homepage:
Spack package:
Versions:
2.9.0
Build Dependencies:
octave
Run Dependencies:
octave
Description:
Adds symbolic calculation features to GNU Octave. These include common Computer Algebra System tools such as algebraic operations, calculus, equation solving, Fourier and Laplace transforms, variable precision arithmetic and other features. Compatibility with other symbolic toolboxes is intended.

octopus

Homepage:
Spack package:
Versions:
develop, 11.4, 11.3, 11.1, 10.5, 10.4, 10.3, 10.2, 10.1, 10.0, 7.3, 6.0, 5.0.1
Build Dependencies:
cuda, autoconf, automake, libtool, m4, blas, gsl, lapack, libxc, mpi, fftw, fftw-api, py-numpy, py-mpi4py, metis, parmetis, scalapack, netcdf-fortran, arpack-ng, cgal, pfft, likwid, libvdwxc, libyaml, elpa, nlopt
Link Dependencies:
cuda, blas, gsl, lapack, libxc, mpi, fftw, fftw-api, py-numpy, py-mpi4py, metis, parmetis, scalapack, netcdf-fortran, arpack-ng, cgal, pfft, likwid, libvdwxc, libyaml, elpa, nlopt
Description:
A real-space finite-difference (time-dependent) density-functional theory code.

odc

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
cmake, ecbuild, eckit
Link Dependencies:
eckit
Description:
ECMWF encoding and decoding of observational data in ODB2 format.

of-catalyst

Homepage:
Spack package:
Versions:
develop, 1806
Build Dependencies:
cmake, openfoam, catalyst, paraview
Link Dependencies:
openfoam, catalyst, paraview
Run Dependencies:
openfoam
Description:
Of-catalyst is a library for OpenFOAM that provides a runtime-selectable function object for embedding ParaView Catalyst in-situ visualization into arbitrary OpenFOAM simulations. Supports in-situ conversion of the following types: 1) finite volume meshes and fields, single or multi- region; 2) finite area meshes and fields, single region; 3) lagrangian (clouds), single or multiple clouds. This offering is part of the community repository supported by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark. OpenCFD Ltd has been developing and releasing OpenFOAM since its debut in 2004.

of-precice

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
openfoam, precice, yaml-cpp
Link Dependencies:
openfoam, precice, yaml-cpp
Description:
preCICE adapter for OpenFOAM

omega-h

Homepage:
Spack package:
Versions:
main, 9.34.1, 9.32.5, 9.29.0, 9.27.0, 9.22.2, 9.19.1, 9.19.0, 9.15.0, 9.14.0, 9.13.14, 9.13.13, scorec.10.1.0
Build Dependencies:
cuda, cmake, gmsh, mpi, trilinos, zlib
Link Dependencies:
cuda, mpi, trilinos, zlib
Description:
Omega_h is a C++11 library providing data structures and algorithms for adaptive discretizations. Its specialty is anisotropic triangle and tetrahedral mesh adaptation. It runs efficiently on most modern HPC hardware including GPUs.

ompss

Homepage:
Spack package:
Versions:
14.10
Build Dependencies:
mpi, hwloc, extrae
Link Dependencies:
mpi, hwloc, extrae
Description:
OmpSs is an effort to integrate features from the StarSs programming model developed by BSC into a single programming model. In particular, our objective is to extend OpenMP with new directives to support asynchronous parallelism and heterogeneity (devices like GPUs). However, it can also be understood as new directives extending other accelerator based APIs like CUDA or OpenCL. Our OmpSs environment is built on top of our Mercurium compiler and Nanos++ runtime system.

ompt-openmp

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
cmake
Description:
LLVM/Clang OpenMP runtime with OMPT support. This is a fork of the OpenMPToolsInterface/LLVM-openmp fork of the official LLVM OpenMP mirror. This library provides a drop-in replacement of the OpenMP runtimes for GCC, Intel and LLVM/Clang.

oneapi-level-zero

Homepage:
Spack package:
Versions:
1.7.15, 1.7.9, 1.7.4, 1.6.2, 1.5.4, 1.5, 1.4.1, 1.3.7, 1.3.6, 1.2.3
Build Dependencies:
cmake
Description:
oneAPI Level Zero Loader. Applications that need low-level control of a oneAPI level zero device link against the loader. The loader depends on a separately installed level zero driver. See https://dgpu- docs.intel.com/technologies/level-zero.html for information on how to install the driver.

onednn

Homepage:
Spack package:
Versions:
master, 2.5.2, 2.1-rc, 2.0, 1.8.1, 1.8, 1.7, 1.6.5, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4, 1.3, 1.2.2, 1.2.1, 1.2, 1.1.3, 1.1.2, 1.1.1, 1.1, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0, 0.21.5, 0.21.4, 0.21.3, 0.21.2, 0.21.1, 0.21, 0.20.6, 0.20.5, 0.20.4, 0.20.3, 0.20.2, 0.20.1, 0.20, 0.19, 0.18.1, 0.11, 0.10, 0.9
Build Dependencies:
cmake, tbb, llvm-openmp, opencl
Link Dependencies:
tbb, llvm-openmp, opencl
Description:
oneAPI Deep Neural Network Library (oneDNN). Formerly known as Intel MKL-DNN and DNNL.

oniguruma

Homepage:
Spack package:
Versions:
6.9.4, 6.1.3
Build Dependencies:
gnuconfig
Description:
Regular expression library.

onnx

Homepage:
Spack package:
Versions:
master, 1.10.1, 1.10.0, 1.9.0, 1.8.0_2020-11-03, 1.7.0_2020-05-31, 1.6.0_2020-02-16, 1.6.0_2019-11-06, 1.6.0_2019-09-26, 1.5.0_2019-07-25, 1.5.0_2019-04-25, 1.3.0_2018-12-04, 1.2.2_2018-07-16, 1.1.0_2018-04-19
Build Dependencies:
cmake, ninja, python, protobuf
Link Dependencies:
protobuf
Description:
Open Neural Network Exchange (ONNX). ONNX provides an open source format for AI models, both deep learning and traditional ML. It defines an extensible computation graph model, as well as definitions of built-in operators and standard data types.

ont-albacore

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-python-dateutil, py-h5py, py-ont-fast5-api
Run Dependencies:
python, py-setuptools, py-numpy, py-python-dateutil, py-h5py, py-ont-fast5-api
Description:
Albacore is a software project that provides an entry point to the Oxford Nanopore basecalling algorithms. It can be run from the command line on Windows and multiple Linux platforms. A selection of configuration files allow basecalling DNA libraries made with our current range of sequencing kits and Flow Cells.

oommf

Homepage:
Spack package:
Versions:
20a3_20210930-vanilla, 20a3_20210930, 20a2_20200608-vanilla, 20a2_20200608, 20a2_20190930-vanilla, 20a1_20180930_ext, 20a1_20180930, 20a0_20170929a0, 12b0_20160930
Build Dependencies:
tk, tcl, xproto
Link Dependencies:
tk
Run Dependencies:
tk, tcl
Test Dependencies:
tk, tcl
Description:
The Object Oriented MicroMagnetic Framework (OOMMF) is aimed at developing portable, extensible public domain programs and tools for micromagnetics. The code forms a completely functional micromagnetics package, with the additional capability to be extended by other programmers so that people developing new code can build on the OOMMF foundation. OOMMF is written in C++, a widely-available, object-oriented language that can produce programs with good performance as well as extensibility. For portable user interfaces, we make use of Tcl/Tk so that OOMMF operates across a wide range of Unix, Windows, and Mac OS X platforms. The main contributors to OOMMF are Mike Donahue, and Don Porter. Summary taken from OOMMF documentation https://math.nist.gov/oommf/ OOMMF home page: "https://math.nist.gov/oommf/" OOMMF as a git repository: https://github.com/fangohr/oommf Versions ending with "-vanilla" indicate that the sources are taken directly from https://math.nist.gov/oommf/dist/ . All other versions are from the https://github.com/fangohr/oommf (which includes the "-vanilla" sources, and adds additional OOMMF extensions). See https://github.com/fangohr/oommf for details.

op2-dsl

Homepage:
Spack package:
Versions:
master, 1.1.0
Build Dependencies:
cuda, mpi, parmetis, scotch, hdf5
Link Dependencies:
cuda, mpi, parmetis, scotch, hdf5
Description:
OP2 is a high-level embedded domain specific language for writing unstructured mesh algorithms with automatic parallelisation on multi- core and many-core architectures.

opa-psm2

Homepage:
Spack package:
Versions:
11.2.206, 11.2.185, 11.2.77, 11.2.68, 10.3-37, 10.3-17, 10.3-10, 10.3-8, 10.2-260, 10.2-235, 10.2-175
Build Dependencies:
numactl
Link Dependencies:
numactl
Description:
Omni-Path Performance Scaled Messaging 2 (PSM2) library

opam

Homepage:
Spack package:
Versions:
2.0.6, 2.0.5, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0, 1.2.2, 1.2.1
Build Dependencies:
gnuconfig, ocaml
Description:
OPAM: OCaml Package Manager OPAM is a source-based package manager for OCaml. It supports multiple simultaneous compiler installations, flexible package constraints, and a Git-friendly development workflow.

opari2

Homepage:
Spack package:
Versions:
2.0.6, 2.0.5, 2.0.4, 2.0.3, 2.0.1, 2.0, 1.1.4, 1.1.2
Build Dependencies:
gnuconfig
Description:
OPARI2 is a source-to-source instrumentation tool for OpenMP and hybrid codes. It surrounds OpenMP directives and runtime library calls with calls to the POMP2 measurement interface. OPARI2 will provide you with a new initialization method that allows for multi-directory and parallel builds as well as the usage of pre-instrumented libraries. Furthermore, an efficient way of tracking parent-child relationships was added. Additionally, we extended OPARI2 to support instrumentation of OpenMP 3.0 tied tasks.

open-iscsi

Homepage:
Spack package:
Versions:
2.1.1, 2.1.0, 2.0.878, 2.0.877, 2.0.876
Build Dependencies:
gettext, uuid, util-linux, kmod, open-isns, libtool
Link Dependencies:
gettext, uuid, util-linux, kmod, open-isns
Description:
The Open-iSCSI project is a high-performance, transport independent, multi-platform implementation of RFC3720 iSCSI.

open-isns

Homepage:
Spack package:
Versions:
0.100, 0.99, 0.98, 0.97, 0.96
Build Dependencies:
gnuconfig
Description:
This is the iSNS server, supporting persistent storage of registrations in a file based database.

open3d

Homepage:
Spack package:
Versions:
0.13.0
Build Dependencies:
cuda, cmake, llvm, eigen, flann, glew, glfw, jpeg, libpng, py-pybind11, qhull, python, py-pip, py-setuptools, py-wheel, py-numpy
Link Dependencies:
cuda, llvm, eigen, flann, glew, glfw, jpeg, libpng, py-pybind11, qhull, python
Run Dependencies:
python, py-numpy
Test Dependencies:
py-pytest
Description:
Open3D: A Modern Library for 3D Data Processing.

openal-soft

Homepage:
Spack package:
Versions:
1.21.1
Build Dependencies:
cmake, alsa-lib
Link Dependencies:
alsa-lib
Description:
OpenAL provides capabilities for playing audio in a virtual 3D environment. Distance attenuation, doppler shift, and directional sound emitters are among the features handled by the API.

openbabel

Homepage:
Spack package:
Versions:
master, 3.0.0, 2.4.1, 2.4.0
Build Dependencies:
cmake, python, pkgconfig, swig, boost, cairo, pango, eigen, libxml2, zlib, rapidjson, libsm, uuid
Link Dependencies:
boost, cairo, pango, eigen, libxml2, zlib, rapidjson, libsm, uuid
Run Dependencies:
python
Description:
Open Babel is a chemical toolbox designed to speak the many languages of chemical data. It's an open, collaborative project allowing anyone to search, convert, analyze, or store data from molecular modeling, chemistry, solid-state materials, biochemistry, or related areas.

openblas

Homepage:
Spack package:
Versions:
develop, 0.3.20, 0.3.19, 0.3.18, 0.3.17, 0.3.16, 0.3.15, 0.3.14, 0.3.13, 0.3.12, 0.3.11, 0.3.10, 0.3.9, 0.3.8, 0.3.7, 0.3.6, 0.3.5, 0.3.4, 0.3.3, 0.3.2, 0.3.1, 0.3.0, 0.2.20, 0.2.19, 0.2.18, 0.2.17, 0.2.16, 0.2.15
Build Dependencies:
perl
Description:
OpenBLAS: An optimized BLAS library

opencarp

Homepage:
Spack package:
Versions:
master, 9.0, 8.2, 8.1, 7.0
Build Dependencies:
cmake, git, petsc, binutils, gengetopt, pkgconfig, python, zlib, perl, py-carputils, meshtool
Link Dependencies:
git, petsc, binutils, gengetopt, pkgconfig, python, zlib, perl, py-carputils, meshtool
Description:
The openCARP simulation software, an open cardiac electrophysiology simulator for in-silico experiments.

opencascade

Homepage:
Spack package:
Versions:
7.6.0, 7.5.3, 7.5.2, 7.4.0p2, 7.4.0p1, 7.4.0
Build Dependencies:
cmake, intel-tbb, vtk, freeimage, rapidjson, freetype, libxext, libxmu, libxi, libxt, tcl, tk, gl
Link Dependencies:
intel-tbb, vtk, freeimage, rapidjson, freetype, libxext, libxmu, libxi, libxt, tcl, tk, gl
Description:
Open CASCADE Technology is a software development kit (SDK) intended for development of applications dealing with 3D CAD data, freely available in open source. It includes a set of C++ class libraries providing services for 3D surface and solid modeling, visualization, data exchange and rapid application development.

opencl-c-headers

Homepage:
Spack package:
Versions:
2022.01.04, 2021.06.30, 2021.04.29, 2020.12.18, 2020.06.16, 2020.03.13
Description:
OpenCL (Open Computing Language) C header files

opencl-clhpp

Homepage:
Spack package:
Versions:
2.0.16, 2.0.15, 2.0.14, 2.0.13, 2.0.12, 2.0.11, 2.0.10, 2.0.9
Build Dependencies:
cmake
Description:
C++ headers for OpenCL development

opencl-headers

Homepage:
Spack package:
Versions:
3.0, 2.2, 2.1, 2.0
Build Dependencies:
opencl-c-headers, opencl-clhpp
Link Dependencies:
opencl-c-headers, opencl-clhpp
Description:
Bundled OpenCL (Open Computing Language) header files

opencoarrays

Homepage:
Spack package:
Versions:
2.7.1, 2.2.0, 1.8.10, 1.8.4, 1.8.0, 1.7.4, 1.6.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
OpenCoarrays is an open-source software project that produces an application binary interface (ABI) supporting coarray Fortran (CAF) compilers, an application programming interface (API) that supports users of non-CAF compilers, and an associated compiler wrapper and program launcher.

opencv

Homepage:
Spack package:
Versions:
master, 4.5.4, 4.5.2, 4.5.1, 4.5.0, 4.2.0, 4.1.2, 4.1.1, 4.1.0, 4.0.1, 4.0.0, 3.4.12, 3.4.6, 3.4.5, 3.4.4, 3.4.3, 3.4.1, 3.4.0, 3.3.1, 3.3.0
Build Dependencies:
cuda, cmake, java, ant, python, py-setuptools, py-numpy, freetype, harfbuzz, hdf5, matlab, py-jinja2, ceres-solver, gflags, glog, libiconv, zlib, clp, cudnn, eigen, ffmpeg, gdal, gtkplus, hpx, ipp, jasper, jpeg, lapack, onnx, opencl, openexr, gl, openjpeg, libpng, protobuf, qt, tbb, libtiff, vtk, libwebp, tesseract, leptonica, libdc1394
Link Dependencies:
cuda, java, ant, python, freetype, harfbuzz, hdf5, matlab, py-jinja2, ceres-solver, gflags, glog, libiconv, zlib, clp, cudnn, eigen, ffmpeg, gdal, gtkplus, hpx, ipp, jasper, jpeg, lapack, onnx, opencl, openexr, gl, openjpeg, libpng, protobuf, qt, tbb, libtiff, vtk, libwebp, tesseract, leptonica, libdc1394
Run Dependencies:
python, py-numpy
Description:
OpenCV (Open Source Computer Vision Library) is an open source computer vision and machine learning software library.

opendatadetector

Homepage:
Spack package:
Versions:
main, v2, v1
Build Dependencies:
cmake, dd4hep, root, boost
Link Dependencies:
dd4hep, root, boost
Description:
Open Data Detector for High Energy Physics.

opendx

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, motif, gl
Link Dependencies:
motif, gl
Description:
Open Visualization Data Explorer.

openexr

Homepage:
Spack package:
Versions:
2.3.0, 2.2.0, 2.1.0, 2.0.1, 1.7.0, 1.6.1, 1.5.0, 1.4.0a, 1.3.2
Build Dependencies:
gnuconfig, pkgconfig, ilmbase, zlib
Link Dependencies:
ilmbase, zlib
Description:
OpenEXR Graphics Tools (high dynamic-range image file format)

openfast

Homepage:
Spack package:
Versions:
develop, master, 3.1.0, 3.0.0, 2.6.0, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.1.0, 2.0.0, 1.0.0
Build Dependencies:
cmake, blas, lapack, mpi, yaml-cpp, hdf5, zlib, libxml2
Link Dependencies:
blas, lapack, mpi, yaml-cpp, hdf5, zlib, libxml2
Description:
Wind turbine simulation package from NREL

openfdtd

Homepage:
Spack package:
Versions:
2.7.3, 2.7.1, 2.6.3, 2.6.0, 2.3.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
OpenFDTD is general purpose FDTD simulator applicable to a wide range of applications. The FDTD method (Finite Difference Time Domain method) is a method for numerically calculating the Maxwell equation, which is the basic equation of the electromagnetic field, by the difference method.

openfoam

Homepage:
Spack package:
Versions:
develop, master, 2112, 2106_211215, 2106, 2012_210414, 2012, 2006_201012, 2006, 1912_200506, 1912_200403, 1912, 1906_200312, 1906_191103, 1906, 1812_200312, 1812_191001, 1812_190531, 1812, 1806, 1712, 1706, 1612
Build Dependencies:
mpi, zlib, fftw-api, boost, cgal, flex, cmake, m4, scotch, kahip, metis, parmgridgen, zoltan, vtk, adios2, paraview
Link Dependencies:
mpi, zlib, fftw-api, boost, cgal, flex, scotch, kahip, metis, zoltan, vtk, adios2, paraview
Description:
OpenFOAM is a GPL-opensource C++ CFD-toolbox. This offering is supported by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark. OpenCFD Ltd has been developing and releasing OpenFOAM since its debut in 2004.

openfoam-org

Homepage:
Spack package:
Versions:
develop, 8, 7, 6, 5.0, 4.1, 2.4.0, 2.3.1
Build Dependencies:
mpi, zlib, flex, cmake, scotch, metis
Link Dependencies:
mpi, zlib, flex, scotch, metis
Description:
OpenFOAM is a GPL-opensource C++ CFD-toolbox. The openfoam.org release is managed by the OpenFOAM Foundation Ltd as a licensee of the OPENFOAM trademark. This offering is not approved or endorsed by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark.

openfst

Homepage:
Spack package:
Versions:
1.8.1, 1.7.9, 1.7.3, 1.6.7, 1.6.1, 1.6.0, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.1-patch, 1.4.1, 1.4.0
Build Dependencies:
gnuconfig, python
Link Dependencies:
python
Run Dependencies:
python
Description:
OpenFst is a library for constructing, combining, optimizing, and searching weighted finite-state transducers (FSTs). Weighted finite- state transducers are automata where each transition has an input label, an output label, and a weight.

opengl

Homepage:
Spack package:
Versions:
4.6, 4.5, 4.4, 4.3, 4.2, 4.1, 4.0, 3.3, 3.2, 3.1, 3.0, 2.1, 2.0, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Description:
Placeholder for external OpenGL libraries from hardware vendors

openglu

Homepage:
Spack package:
Description:
Placeholder for external OpenGL utility library (GLU) from hardware vendors

openimageio

Homepage:
Spack package:
Versions:
2.2.7.0, 1.8.15
Build Dependencies:
cmake, boost, libtiff, openexr, libpng, ffmpeg, openjpeg, python, py-numpy, py-pybind11, qt
Link Dependencies:
boost, libtiff, openexr, libpng, ffmpeg, openjpeg, qt
Run Dependencies:
python, py-numpy, py-pybind11
Description:
OpenImageIO is a library for reading and writing images, and a bunch of related classes, utilities, and applications.

openipmi

Homepage:
Spack package:
Versions:
2.0.29, 2.0.28, 2.0.27
Build Dependencies:
gnuconfig, python, perl
Link Dependencies:
popt, python, perl, termcap, ncurses, readline
Run Dependencies:
python, perl
Description:
The Open IPMI project aims to develop an open code base to allow access to platform information using Intelligent Platform Management Interface (IPMI).

openjdk

Homepage:
Spack package:
Versions:
17.0.3_7, 17.0.2_8, 17.0.0_35, 16.0.2, 11.0.15_10, 11.0.14.1_1, 11.0.12_7, 11.0.8_10, 11.0.2, 11.0.1, 1.8.0_265-b01, 1.8.0_222-b10, 1.8.0_202-b08, 1.8.0_40-b25
Description:
The free and opensource java implementation

openjpeg

Homepage:
Spack package:
Versions:
2.4.0, 2.3.1, 2.3.0, 2.2.0, 2.1.2, 2.1.1, 2.1.0, 2.0.1, 2.0.0, 1.5.2, 1.5.1
Build Dependencies:
cmake, zlib, libpng, libtiff, lcms
Link Dependencies:
zlib, libpng, libtiff, lcms
Description:
OpenJPEG is an open-source JPEG 2000 codec written in C language. It has been developed in order to promote the use of JPEG 2000, a still-image compression standard from the Joint Photographic Experts Group (JPEG). Since April 2015, it is officially recognized by ISO/IEC and ITU-T as a JPEG 2000 Reference Software.

openkim-models

Homepage:
Spack package:
Versions:
2021-01-28, 2019-07-25, 2019-03-29
Build Dependencies:
cmake, kim-api
Link Dependencies:
kim-api
Run Dependencies:
kim-api
Description:
OpenKIM is an online framework for making molecular simulations reliable, reproducible, and portable. Computer implementations of inter- atomic models are archived in OpenKIM, verified for coding integrity, and tested by computing their predictions for a variety of material properties. Models conforming to the KIM application programming interface (API) work seamlessly with major simulation codes that have adopted the KIM API standard. This package provides all models archived at openkim.org that are compatible with the kim-api package.

openldap

Homepage:
Spack package:
Versions:
2.6.0, 2.4.49, 2.4.48
Build Dependencies:
gnuconfig, icu4c, gnutls, openssl, unixodbc, postgresql, berkeley-db, cyrus-sasl, perl, groff, pkgconfig, wiredtiger
Link Dependencies:
icu4c, gnutls, openssl, unixodbc, postgresql, berkeley-db, cyrus-sasl, perl, wiredtiger
Description:
OpenLDAP Software is an open source implementation of the Lightweight Directory Access Protocol. The suite includes: slapd - stand-alone LDAP daemon (server) libraries implementing the LDAP protocol, and utilities, tools, and sample clients.

openlibm

Homepage:
Spack package:
Versions:
0.8.0, 0.7.5
Description:
OpenLibm is an effort to have a high quality, portable, standalone C mathematical library

openloops

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1
Build Dependencies:
python
Run Dependencies:
python
Description:
The OpenLoops 2 program is a fully automated implementation of the Open Loops algorithm combined with on-the-fly reduction methods, which allows for the fast and stable numerical evaluation of tree and one-loop matrix elements for any Standard Model process at NLO QCD and NLO EW.

openmc

Homepage:
Spack package:
Versions:
develop, master, 0.13.0, 0.12.2, 0.12.1, 0.12.0, 0.11.0, 0.10.0
Build Dependencies:
cmake, git, hdf5, mpi
Link Dependencies:
hdf5, mpi
Description:
OpenMC is a community-developed Monte Carlo neutron and photon transport simulation code. It is capable of performing fixed source, k-eigenvalue, and subcritical multiplication calculations on models built using either a constructive solid geometry or CAD representation. OpenMC supports both continuous-energy and multigroup transport. The continuous-energy particle interaction data is based on a native HDF5 format that can be generated from ACE files produced by NJOY. Parallelism is enabled via a hybrid MPI and OpenMP programming model.

openmm

Homepage:
Spack package:
Versions:
7.5.0, 7.4.1
Build Dependencies:
cuda, cmake, python, doxygen, swig, fftw, py-cython, py-numpy
Link Dependencies:
cuda, fftw
Run Dependencies:
cuda, python, py-numpy
Description:
A high performance toolkit for molecular simulation. Use it as a library, or as an application. We include extensive language bindings for Python, C, C++, and even Fortran. The code is open source and actively maintained on Github, licensed under MIT and LGPL. Part of the Omnia suite of tools for predictive biomolecular simulation.

openmolcas

Homepage:
Spack package:
Versions:
21.02, 19.11
Build Dependencies:
cmake, hdf5, lapack, openblas, python, py-pyparsing, py-six, mpi, globalarrays
Link Dependencies:
hdf5, lapack, openblas, mpi, globalarrays
Run Dependencies:
python, py-pyparsing, py-six
Description:
OpenMolcas is a quantum chemistry software package. The key feature of OpenMolcas is the multiconfigurational approach to the electronic structure.

openmpi

Homepage:
Spack package:
Versions:
main, 4.1.3, 4.1.2, 4.1.1, 4.1.0, 4.0.7, 4.0.6, 4.0.5, 4.0.4, 4.0.3, 4.0.2, 4.0.1, 4.0.0, 3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.1.6, 2.1.5, 2.1.4, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0, 1.10.7, 1.10.6, 1.10.5, 1.10.4, 1.10.3, 1.10.2, 1.10.1, 1.10.0, 1.8.8, 1.8.7, 1.8.6, 1.8.5, 1.8.4, 1.8.3, 1.8.2, 1.8.1, 1.8, 1.7.5, 1.7.4, 1.7.3, 1.7.2, 1.7.1, 1.7, 1.6.5, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.5, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5, 1.4.5, 1.4.4, 1.4.3, 1.4.2, 1.4.1, 1.4, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3, 1.2.9, 1.2.8, 1.2.7, 1.2.6, 1.2.5, 1.2.4, 1.2.3, 1.2.2, 1.2.1, 1.2, 1.1.5, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1, 1.0.2, 1.0.1, 1.0
Build Dependencies:
cuda, gnuconfig, numactl, autoconf, automake, libtool, m4, perl, pkgconfig, hwloc, java, sqlite, zlib, valgrind, singularity, lustre, opa-psm2, rdma-core, mxm, binutils, ucx, libfabric, fca, hcoll, xpmem, knem, lsf, pbs, slurm, pmix, libevent
Link Dependencies:
cuda, numactl, hwloc, java, sqlite, zlib, valgrind, singularity, lustre, opa-psm2, rdma-core, mxm, binutils, ucx, libfabric, fca, hcoll, xpmem, knem, lsf, pbs, slurm, pmix, libevent
Run Dependencies:
openssh
Description:
An open source Message Passing Interface implementation. The Open MPI Project is an open source Message Passing Interface implementation that is developed and maintained by a consortium of academic, research, and industry partners. Open MPI is therefore able to combine the expertise, technologies, and resources from all across the High Performance Computing community in order to build the best MPI library available. Open MPI offers advantages for system and software vendors, application developers and computer science researchers.

openmx

Homepage:
Spack package:
Versions:
3.8
Build Dependencies:
mpi, fftw, blas, lapack, sse2neon
Link Dependencies:
mpi, fftw, blas, lapack, sse2neon
Description:
OpenMX (Open source package for Material eXplorer) is a software package for nano-scale material simulations based on density functional theories (DFT), norm-conserving pseudopotentials, and pseudo-atomic localized basis functions.

opennurbs

Homepage:
Spack package:
Versions:
develop, percept
Description:
OpenNURBS is an open-source NURBS-based geometric modeling library and toolset, with meshing and display / output functions.

openpa

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
gnuconfig
Description:
An open source, highly-portable library that provides atomic primitives (and related constructs) for high performance, concurrent software

openpbs

Homepage:
Spack package:
Versions:
20.0.1, 19.1.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, flex, bison, perl, ssmtp, xauth, python, libx11, libice, libsm, openssl, postgresql, expat, libedit, ncurses, hwloc, libical, swig, tcl, tk, zlib
Link Dependencies:
python, libx11, libice, libsm, openssl, postgresql, expat, libedit, ncurses, hwloc, libical, swig, tcl, tk, zlib
Run Dependencies:
ssmtp, xauth, python
Description:
OpenPBS software optimizes job scheduling and workload management in high-performance computing (HPC) environments - clusters, clouds, and supercomputers - improving system efficiency and people's productivity.

openpmd-api

Homepage:
Spack package:
Versions:
develop, 0.14.4, 0.14.3, 0.14.2, 0.14.1, 0.14.0, 0.13.4, 0.13.3, 0.13.2, 0.13.1, 0.13.0, 0.12.0, 0.11.1
Build Dependencies:
cmake, mpark-variant, mpi, nlohmann-json, hdf5, adios, adios2, python
Link Dependencies:
mpark-variant, mpi, nlohmann-json, hdf5, adios, adios2, py-pybind11, python
Run Dependencies:
py-numpy, py-mpi4py, python
Test Dependencies:
catch2, py-numpy, py-mpi4py, python
Description:
C++ & Python API for Scientific I/O

openrasmol

Homepage:
Spack package:
Versions:
2.7.5.2
Build Dependencies:
imake
Link Dependencies:
libxext, libxi, cbflib, cqrlib, cvector, neartree, xforms
Description:
RasMol is a molecular graphics program intended for the visualisation of proteins, nucleic acids and small molecules.

openresty

Homepage:
Spack package:
Versions:
1.15.8.2, 1.15.8.1, 1.13.6.2
Build Dependencies:
gnuconfig, pcre
Description:
OpenResty is a full-fledged web application server by bundling the standard nginx core, lots of 3rd-party nginx modules, as well as most of their external dependencies.

openscenegraph

Homepage:
Spack package:
Versions:
3.6.5, 3.6.4, 3.4.1, 3.4.0, 3.2.3, 3.1.5
Build Dependencies:
cmake, gl, qt, libxinerama, libxrandr, libpng, jasper, libtiff, glib, zlib, ffmpeg
Link Dependencies:
gl, qt, libxinerama, libxrandr, libpng, jasper, libtiff, glib, zlib, ffmpeg
Description:
OpenSceneGraph is an open source, high performance 3D graphics toolkit that's used in a variety of visual simulation applications.

openslide

Homepage:
Spack package:
Versions:
3.4.1
Build Dependencies:
gnuconfig, pkgconfig, openjpeg, jpeg, libtiff, libxml2, sqlite, glib, cairo, gdk-pixbuf
Link Dependencies:
openjpeg, jpeg, libtiff, libxml2, sqlite, glib, cairo, gdk-pixbuf
Description:
OpenSlide reads whole slide image files.

openslp

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, flex, byacc
Description:
OpenSLP project is an effort to develop an open-source, commercial- grade, implementation of IETF Standards track Service Location Protocol (RFC 2608). The interface conforms to IETF Standards track, "An API for Service Location" (RFC 2614)

openspeedshop

Homepage:
Spack package:
Versions:
develop, 2.4.2.1, 2.4.2, 2.4.1
Build Dependencies:
cmake, libtool, bison, flex, binutils, libdwarf, sqlite, boost, dyninst, python, libxml2, qt, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Link Dependencies:
binutils, elfutils, libdwarf, sqlite, boost, dyninst, libxml2, qt, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Run Dependencies:
python, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Description:
OpenSpeedShop is a community effort led by Trenza, Inc. It builds on top of a broad list of community infrastructures, most notably Dyninst and MRNet from UW, libmonitor from Rice, and PAPI from UTK. OpenSpeedShop is an open source multi platform Linux performance tool which is targeted to support performance analysis of applications running on both single node and large scale IA64, IA32, EM64T, AMD64, PPC, ARM, Power8, Intel Phi, Blue Gene and Cray platforms. OpenSpeedShop development is hosted by Trenza Inc.. The infrastructure and base components of OpenSpeedShop are released as open source code primarily under LGPL.

openspeedshop-utils

Homepage:
Spack package:
Versions:
develop, 2.4.2.1, 2.4.2, 2.4.1
Build Dependencies:
cmake, libtool, bison, flex, binutils, libdwarf, sqlite, boost, dyninst, python, libxml2, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Link Dependencies:
elfutils, libdwarf, sqlite, boost, dyninst, libxml2, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Run Dependencies:
python, cbtf, cbtf-krell, cbtf-argonavis, mrnet
Description:
OpenSpeedShop is a community effort led by Trenza, Inc. It builds on top of a broad list of community infrastructures, most notably Dyninst and MRNet from UW, libmonitor from Rice, and PAPI from UTK. OpenSpeedShop is an open source multi platform Linux performance tool which is targeted to support performance analysis of applications running on both single node and large scale IA64, IA32, EM64T, AMD64, PPC, ARM, Power8, Intel Phi, Blue Gene and Cray platforms. OpenSpeedShop development is hosted by Trenza Inc.. The infrastructure and base components of OpenSpeedShop are released as open source code primarily under LGPL. openspeedshop- utils is a package that does not have the qt3 gui. It was created to avoid a conflict between openspeedshop and cbtf-argonavis-gui based on the fact that spack will not allow a qt3 and qt4/qt5 dependency in a packages dependency tree.

openssh

Homepage:
Spack package:
Versions:
9.0p1, 8.9p1, 8.8p1, 8.7p1, 8.6p1, 8.5p1, 8.4p1, 8.3p1, 8.1p1, 7.9p1, 7.6p1, 7.5p1, 7.4p1, 7.3p1, 7.2p2, 7.1p2, 7.0p1, 6.9p1, 6.8p1, 6.7p1, 6.6p1
Build Dependencies:
gnuconfig, openssl, libedit, ncurses, zlib
Link Dependencies:
openssl, libedit, ncurses, zlib
Test Dependencies:
py-twisted
Description:
OpenSSH is the premier connectivity tool for remote login with the SSH protocol. It encrypts all traffic to eliminate eavesdropping, connection hijacking, and other attacks. In addition, OpenSSH provides a large suite of secure tunneling capabilities, several authentication methods, and sophisticated configuration options.

openssl

Homepage:
Spack package:
Versions:
3.0.2, 3.0.1, 3.0.0, 1.1.1o, 1.1.1n, 1.1.1m, 1.1.1l, 1.1.1k, 1.1.1j, 1.1.1i, 1.1.1h, 1.1.1g, 1.1.1f, 1.1.1e, 1.1.1d, 1.1.1c, 1.1.1b, 1.1.1a, 1.1.1, 1.1.0l, 1.1.0k, 1.1.0j, 1.1.0i, 1.1.0g, 1.1.0e, 1.1.0d, 1.1.0c, 1.0.2u, 1.0.2t, 1.0.2s, 1.0.2r, 1.0.2p, 1.0.2o, 1.0.2n, 1.0.2m, 1.0.2k, 1.0.2j, 1.0.2i, 1.0.2h, 1.0.2g, 1.0.2f, 1.0.2e, 1.0.2d, 1.0.1u, 1.0.1t, 1.0.1r, 1.0.1h, 1.0.1e
Build Dependencies:
zlib, perl, ca-certificates-mozilla, nasm
Link Dependencies:
zlib, nasm
Run Dependencies:
ca-certificates-mozilla
Test Dependencies:
perl
Description:
OpenSSL is an open source project that provides a robust, commercial- grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library.

openstf

Homepage:
Spack package:
Versions:
1.7.0, 1.3.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
OpenSTF is an electrostatic field simulator which can calculate the voltage distribution and the electric field distribution of a system consisting of electrodes and dielectrics.

opensubdiv

Homepage:
Spack package:
Versions:
develop, 3.4.3, 3.4.0
Build Dependencies:
cuda, cmake, graphviz, doxygen, py-docutils, python, gl, glew, glfw, intel-tbb, libxrandr, libxcursor, libxinerama, llvm-openmp
Link Dependencies:
cuda, gl, glew, glfw, intel-tbb, libxrandr, libxcursor, libxinerama, llvm-openmp
Description:
OpenSubdiv is a set of open source libraries that implement high performance subdivision surface (subdiv) evaluation on massively parallel CPU and GPU architectures. This code path is optimized for drawing deforming surfaces with static topology at interactive framerates.

opentsdb

Homepage:
Spack package:
Versions:
2.4.0, 2.3.2, 2.3.1, 2.3.0, 2.2.2, 2.2.1, 2.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Run Dependencies:
java
Description:
OpenTSDB is a distributed, scalable Time Series Database (TSDB) written on top of HBase. OpenTSDB was written to address a common need: store, index and serve metrics collected from computer systems (network gear, operating systems, applications) at a large scale, and make this data easily accessible and graphable.

openturns

Homepage:
Spack package:
Versions:
master, 1.18
Build Dependencies:
cmake, python, mpi, lapack, swig, py-numpy, py-pandas, py-matplotlib, boost, intel-tbb, py-cloudpickle, py-urllib3
Run Dependencies:
python, mpi, lapack, swig, py-numpy, py-pandas, py-matplotlib, boost, intel-tbb, py-cloudpickle, py-urllib3
Description:
OpenTURNS is a scientific C++ and Python library featuring an internal data model and algorithms dedicated to the treatment of uncertainties. The main goal of this library is to provide all functionalities needed to treat uncertainties in studies with industrial applications. Targeted users are all engineers who want to introduce the probabilistic dimension in their so far deterministic studies.

openvdb

Homepage:
Spack package:
Versions:
develop, 8.0.1, 7.1.0
Build Dependencies:
cmake, ilmbase, openexr, intel-tbb, c-blosc, python, py-numpy, boost, llvm, bison, flex, git
Link Dependencies:
ilmbase, openexr, intel-tbb, c-blosc, py-numpy, boost, llvm, bison, flex
Run Dependencies:
python
Description:
OpenVDB - a sparse volume data format.

openwsman

Homepage:
Spack package:
Versions:
2.7.0, 2.6.11, 2.6.10
Build Dependencies:
cmake, python, swig
Link Dependencies:
python, curl, libxml2, openssl, sblim-sfcc
Run Dependencies:
python
Description:
Openwsman server implementation and client api with bindings.

opium

Homepage:
Spack package:
Versions:
4.1, 3.8
Build Dependencies:
gnuconfig, lapack
Link Dependencies:
lapack
Description:
DFT pseudopotential generation project

optional-lite

Homepage:
Spack package:
Versions:
3.2.0, 3.1.1, 3.1.0, 3.0.0, 2.3.0, 2.2.0, 2.0.0, 1.0.3
Build Dependencies:
cmake
Description:
A single-file header-only version of a C++17-like optional, a nullable object for C++98, C++11 and later.

optipng

Homepage:
Spack package:
Versions:
0.7.7
Build Dependencies:
gnuconfig
Description:
OptiPNG is a PNG optimizer that recompresses image files to a smaller size, without losing any information. This program also converts external formats (BMP, GIF, PNM and TIFF) to optimized PNG, and performs PNG integrity checks and corrections.

opus

Homepage:
Spack package:
Versions:
1.3.1, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1, 1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.9.14, 0.9.10, 0.9.9, 0.9.8, 0.9.7, 0.9.6, 0.9.5, 0.9.3, 0.9.2, 0.9.1, 0.9.0
Build Dependencies:
gnuconfig, libvorbis
Link Dependencies:
libvorbis
Description:
Opus is a totally open, royalty-free, highly versatile audio codec.

or-tools

Homepage:
Spack package:
Versions:
7.8
Build Dependencies:
cmake, gflags, glog, protobuf, abseil-cpp, cbc, cgl, clp, osi, coinutils
Link Dependencies:
gflags, glog, protobuf, abseil-cpp, cbc, cgl, clp, osi, coinutils
Description:
This project hosts operations research tools developed at Google and made available as open source under the Apache 2.0 License.

oracle-instant-client

Homepage:
Spack package:
Versions:
21.1.0.0.0, 19.10.0.0.0
Link Dependencies:
libaio
Description:
Oracle instant client

oras

Homepage:
Spack package:
Versions:
main, 0.12.0
Build Dependencies:
go
Description:
ORAS means OCI Registry As Storage

orbit2

Homepage:
Spack package:
Versions:
2.14.19
Build Dependencies:
gnuconfig, pkgconfig, glib, libidl
Link Dependencies:
glib, libidl
Description:
ORBit is a fast and lightweight CORBA server.

orc

Homepage:
Spack package:
Versions:
1.6.5
Build Dependencies:
cmake, maven, openssl, zlib, pcre, protobuf, zstd, googletest, snappy, lz4
Link Dependencies:
maven, openssl, zlib, pcre, protobuf, zstd, googletest, snappy, lz4
Description:
the smallest, fastest columnar storage for Hadoop workloads.

orca

Homepage:
Spack package:
Versions:
4.2.1, 4.2.0, 4.0.1.2
Build Dependencies:
zstd
Run Dependencies:
openmpi
Description:
An ab initio, DFT and semiempirical SCF-MO package Note: Orca is licensed software. You will need to create an account on the Orca homepage and download Orca yourself. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

orfm

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
gnuconfig
Link Dependencies:
zlib
Description:
A simple and not slow open reading frame (ORF) caller. No bells or whistles like frameshift detection, just a straightforward goal of returning a FASTA file of open reading frames over a certain length from a FASTA/Q file of nucleotide sequences.

orientdb

Homepage:
Spack package:
Versions:
3.1.2, 3.1.1, 3.1.0
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
OrientDB is an Open Source Multi-Model NoSQL DBMS with the support of Native Graphs, Documents Full-Text, Reactivity, Geo-Spatial and Object Oriented concepts. It's written in Java and it's amazingly fast.

orthofiller

Homepage:
Spack package:
Versions:
1.1.4
Run Dependencies:
augustus, bedtools2, hmmer, orthofinder, python, py-biopython, py-scipy, r, r-gamlss, mafft
Description:
OrthoFiller: Identifying missing annotations for evolutionarily conserved genes.

orthofinder

Homepage:
Spack package:
Versions:
2.5.4, 2.5.2, 2.2.0
Run Dependencies:
py-numpy, py-scipy, diamond, blast-plus, mcl, fastme
Description:
OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics. It finds orthologues and orthogroups infers rooted gene trees for all orthogroups and infers a rooted species tree for the species being analysed. OrthoFinder also provides comprehensive statistics for comparative genomic analyses. OrthoFinder is simple to use and all you need to run it is a set of protein sequence files (one per species) in FASTA format.

orthomcl

Homepage:
Spack package:
Versions:
2.0.9
Build Dependencies:
perl, blast-plus, mcl, mariadb
Link Dependencies:
blast-plus, mcl, mariadb
Run Dependencies:
perl
Description:
OrthoMCL is a genome-scale algorithm for grouping orthologous protein sequences.

osi

Homepage:
Spack package:
Versions:
0.108.6
Build Dependencies:
gnuconfig, coinutils
Link Dependencies:
coinutils
Description:
Osi (Open Solver Interface) provides an abstract base class to a generic linear programming (LP) solver, along with derived classes for specific solvers. Many applications may be able to use the Osi to insulate themselves from a specific LP solver. That is, programs written to the OSI standard may be linked to any solver with an OSI interface and should produce correct results. The OSI has been significantly extended compared to its first incarnation. Currently, the OSI supports linear programming solvers and has rudimentary support for integer programming.

osmctools

Homepage:
Spack package:
Versions:
0.9, 0.8
Build Dependencies:
gnuconfig, zlib, autoconf, automake, libtool, m4
Link Dependencies:
zlib
Description:
A few really fast tools to convert, filter and update OpenStreetMap data files

osqp

Homepage:
Spack package:
Versions:
master, 0.6.0, 0.5.0
Build Dependencies:
cmake
Description:
The OSQP (Operator Splitting Quadratic Program) solver is a numerical optimization package for solving problems in the form: minimize 0.5 x' P x + q' x, subject to l <= A x <= u, where "x in R^n" is the optimization variable.

ossp-uuid

Homepage:
Spack package:
Versions:
1.6.2
Build Dependencies:
gnuconfig
Description:
OSSP uuid is a ISO-C:1999 application programming interface (API) and corresponding command line interface (CLI) for the generation of DCE 1.1, ISO/IEC 11578:1996 and RFC 4122 compliant Universally Unique Identifier (UUID).

osu-micro-benchmarks

Homepage:
Spack package:
Versions:
5.9, 5.7.1, 5.7, 5.6.3, 5.6.2, 5.6.1, 5.5, 5.4, 5.3
Build Dependencies:
cuda, gnuconfig, mpi
Link Dependencies:
cuda, mpi
Description:
The Ohio MicroBenchmark suite is a collection of independent MPI message passing performance microbenchmarks developed and written at The Ohio State University. It includes traditional benchmarks and performance measures such as latency, bandwidth and host overhead and can be used for both traditional and GPU-enhanced nodes.

otf

Homepage:
Spack package:
Versions:
1.12.5salmon
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
To improve scalability for very large and massively parallel traces the Open Trace Format (OTF) is developed at ZIH as a successor format to the Vampir Trace Format (VTF3).

otf2

Homepage:
Spack package:
Versions:
2.3, 2.2, 2.1.1, 2.1, 2.0, 1.5.1, 1.4, 1.3.1, 1.2.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The Open Trace Format 2 is a highly scalable, memory efficient event trace data format plus support library.

ovito

Homepage:
Spack package:
Versions:
3.6.0
Description:
OVITO is a scientific visualization and analysis software for atomistic and particle simulation data. It helps scientists gain better insights into materials phenomena and physical processes. OVITO Basic is freely available for all major platforms under an open source license. It has served in a growing number of computational simulation studies as a powerful tool to analyze, understand and illustrate simulation results.

p11-kit

Homepage:
Spack package:
Versions:
0.23.21, 0.23.20, 0.23.19
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, libtasn1, libffi
Link Dependencies:
libtasn1, libffi
Description:
p11-kit aims to solve problems with coordinating the use of PKCS #11 by different components or libraries living in the same process, by providing a way to load and enumerate PKCS #11 modules, as well as a standard configuration setup for installing PKCS #11 modules in such a way that they're discoverable.

p3dfft3

Homepage:
Spack package:
Versions:
develop, 3.0.0
Build Dependencies:
gnuconfig, mpi, fftw, essl
Link Dependencies:
mpi, fftw, essl
Description:
P3DFFT++ (a.k.a. P3DFFT v. 3) is a new generation of P3DFFT library that aims to provide a comprehensive framework for simulating multiscale phenomena. It takes the essence of P3DFFT further by creating an extensible, modular structure uniquely adaptable to a greater range of use cases.

p4est

Homepage:
Spack package:
Versions:
2.8, 2.3.2, 2.3.1, 2.2, 2.1, 2.0, 1.1
Build Dependencies:
gnuconfig, automake, autoconf, libtool, mpi, zlib
Link Dependencies:
mpi, zlib
Description:
Dynamic management of a collection (a forest) of adaptive octrees in parallel

p7zip

Homepage:
Spack package:
Versions:
16.02
Build Dependencies:
yasm
Description:
A Unix port of the 7z file archiver

pacbio-daligner

Homepage:
Spack package:
Versions:
2017-08-05
Build Dependencies:
gmake, pacbio-dazz-db
Link Dependencies:
pacbio-dazz-db
Description:
Daligner: The Dazzler "Overlap" Module. This is a special fork required for some pacbio utilities.

pacbio-damasker

Homepage:
Spack package:
Versions:
2017-02-11
Build Dependencies:
gmake
Description:
Damasker: The Dazzler Repeat Masking Suite. This is a special fork required for some pacbio utilities.

pacbio-dazz-db

Homepage:
Spack package:
Versions:
2017-04-10
Build Dependencies:
gmake
Description:
The Dazzler Database Library. This version is a special fork required for some pacbio utilities.

pacbio-dextractor

Homepage:
Spack package:
Versions:
2016-08-09
Build Dependencies:
hdf5, gmake
Link Dependencies:
hdf5
Description:
The Dextractor and Compression Command Library. This is a special fork required by some pacbio utilities.

packmol

Homepage:
Spack package:
Versions:
18.169
Build Dependencies:
cmake
Description:
Packmol creates an initial point for molecular dynamics simulations by packing molecules in defined regions of space.

pacparser

Homepage:
Spack package:
Versions:
1.3.9, 1.3.8, 1.3.7
Build Dependencies:
python, py-setuptools
Link Dependencies:
python
Run Dependencies:
python, py-setuptools
Description:
pacparser is a library to parse proxy auto-config (PAC) files.

pacvim

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
Pacvim is a command-line-based game based off of Pacman. The main purpose of this software is to familiarize individuals with Vim.

pagit

Homepage:
Spack package:
Versions:
1.01
Build Dependencies:
java, perl
Run Dependencies:
java, perl
Description:
PAGIT addresses the need for software to generate high quality draft genomes.

pagmo

Homepage:
Spack package:
Versions:
1.1.7
Build Dependencies:
cmake, python, boost, gsl, ipopt, mpi, blas, py-scipy, py-networkx
Link Dependencies:
boost, gsl, ipopt, mpi, blas
Run Dependencies:
python, py-scipy, py-networkx
Description:
Parallel Global Multiobjective Optimizer (and its Python alter ego PyGMO) is a C++ / Python platform to perform parallel computations of optimisation tasks (global and local) via the asynchronous generalized island model.

pagmo2

Homepage:
Spack package:
Versions:
master, 2.18.0
Build Dependencies:
cmake, boost, intel-tbb, mpi
Link Dependencies:
boost, intel-tbb, mpi
Description:
Parallel Global Multiobjective Optimizer (and its Python alter ego PyGMO) is a C++ / Python platform to perform parallel computations of optimisation tasks (global and local) via the asynchronous generalized island model.

pajeng

Homepage:
Spack package:
Versions:
develop, 1.3.6, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3, 1.1, 1.0
Build Dependencies:
cmake, boost, flex, bison, qt, freeglut, fmt
Link Dependencies:
boost, flex, bison, qt, freeglut, fmt
Description:
PajeNG is a re-implementation of the well-known Paje visualization tool for the analysis of execution traces. PajeNG comprises the libpaje library, and an auxiliary tool called pj_dump to transform Paje trace files to Comma-Separated Value (CSV). The space-time visualization tool called pajeng had been deprecated (removed from the sources) since modern tools do a better job (see pj_gantt).

pal

Homepage:
Spack package:
Versions:
0.9.8
Build Dependencies:
gnuconfig, sofa-c, erfa
Link Dependencies:
sofa-c, erfa
Description:
The PAL library is a partial re-implementation of Pat Wallace's popular SLALIB library written in C using a Gnu GPL license and layered on top of the IAU's SOFA library (or the BSD-licensed ERFA) where appropriate.

palisade-development

Homepage:
Spack package:
Versions:
master, fppe-logreg-v1.0, feature-fixed-point-encoding
Build Dependencies:
cmake, autoconf, hwloc, ntl
Link Dependencies:
autoconf, hwloc, ntl
Description:
PALISADE is a general lattice cryptography library that currently includes efficient implementations of the following lattice cryptography capabilities: Fully Homomorphic Encryption (FHE): - Brakerski/Fan- Vercauteren (BFV) scheme for integer arithmetic - Brakerski-Gentry- Vaikuntanathan (BGV) scheme for integer arithmetic - Cheon-Kim-Kim-Song (CKKS) scheme for real-number arithmetic - Ducas-Micciancio (FHEW) and Chillotti-Gama-Georgieva-Izabachene (TFHE) schemes for Boolean circuit evaluation Multi-Party Extensions of FHE (to support multi-key FHE): - Threshold FHE for BGV, BFV, and CKKS schemes - Proxy Re-Encryption for BGV, BFV, and CKKS schemes

paml

Homepage:
Spack package:
Versions:
4.10.3, 4.10.0, 4.9h
Description:
PAML is a package of programs for phylogenetic analyses of DNA or protein sewuences using maximum likelihood.

panda

Homepage:
Spack package:
Versions:
2016-03-07
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
PANDA: Parallel AdjaceNcy Decomposition Algorithm

pandaseq

Homepage:
Spack package:
Versions:
2.11, 2.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, zlib, pkgconfig
Link Dependencies:
libtool, bzip2
Description:
PANDASEQ is a program to align Illumina reads, optionally with PCR primers embedded in the sequence, and reconstruct an overlapping sequence.

pandoc

Homepage:
Spack package:
Versions:
2.14.0.3, 2.11.4, 2.7.3
Build Dependencies:
texlive
Link Dependencies:
texlive
Description:
If you need to convert files from one markup format into another, pandoc is your swiss-army knife.

pango

Homepage:
Spack package:
Versions:
1.50.7, 1.49.4, 1.48.11, 1.47.0, 1.46.2, 1.45.5, 1.44.6, 1.42.4, 1.42.0, 1.41.0, 1.40.3, 1.40.1, 1.36.8
Build Dependencies:
meson, ninja, pkgconfig, harfbuzz, cairo, libxft, glib, gobject-introspection, fontconfig, freetype, libffi, fribidi, json-glib
Link Dependencies:
harfbuzz, cairo, libxft, glib, gobject-introspection, fontconfig, freetype, libffi, fribidi, json-glib
Description:
Pango is a library for laying out and rendering of text, with an emphasis on internationalization. It can be used anywhere that text layout is needed, though most of the work on Pango so far has been done in the context of the GTK+ widget toolkit.

pangolin

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, gl, glew, eigen
Link Dependencies:
gl, glew, glu, eigen
Description:
Pangolin is a lightweight portable rapid development library for managing OpenGL display / interaction and abstracting video input.

pangomm

Homepage:
Spack package:
Versions:
2.43.1, 2.42.0, 2.41.5, 2.40.2, 2.39.1, 2.38.1, 2.37.2, 2.36.0, 2.35.1, 2.34.0, 2.28.4, 2.27.1, 2.26.3, 2.25.1, 2.24.0, 2.14.1, 2.14.0
Build Dependencies:
gnuconfig, pango, glibmm, cairomm
Link Dependencies:
pango, glibmm, cairomm
Description:
Pangomm is a C++ interface to Pango.

papi

Homepage:
Spack package:
Versions:
master, 6.0.0.1, 6.0.0, 5.7.0, 5.6.0, 5.5.1, 5.5.0, 5.4.3, 5.4.1, 5.3.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, gnuconfig, lm-sensors, cuda, rocprofiler-dev, rocm-smi-lib
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, lm-sensors, cuda, rocprofiler-dev, rocm-smi-lib
Description:
PAPI provides the tool designer and application engineer with a consistent interface and methodology for use of the performance counter hardware found in most major microprocessors. PAPI enables software engineers to see, in near real time, the relation between software performance and processor events. In addition Component PAPI provides access to a collection of components that expose performance measurement opportunities across the hardware and software stack.

papyrus

Homepage:
Spack package:
Versions:
master, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Parallel Aggregate Persistent Storage

paradiseo

Homepage:
Spack package:
Versions:
head, dev-safe
Build Dependencies:
cmake, mpi, gnuplot, eigen, boost
Link Dependencies:
mpi, gnuplot, boost
Description:
A C++ white-box object-oriented framework dedicated to the reusable design of metaheuristics.

parallel

Homepage:
Spack package:
Versions:
20210922, 20200822, 20190222, 20170322, 20170122, 20160422, 20160322
Build Dependencies:
gnuconfig, perl
Run Dependencies:
perl
Description:
GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input.

parallel-netcdf

Homepage:
Spack package:
Versions:
master, 1.12.2, 1.12.1, 1.11.2, 1.11.1, 1.11.0, 1.10.0, 1.9.0, 1.8.1, 1.8.0, 1.7.0, 1.6.1
Build Dependencies:
gnuconfig, mpi, m4, autoconf, automake, libtool, perl
Link Dependencies:
mpi
Description:
PnetCDF (Parallel netCDF) is a high-performance parallel I/O library for accessing files in format compatibility with Unidata's NetCDF, specifically the formats of CDF-1, 2, and 5.

parallelio

Homepage:
Spack package:
Versions:
2_5_4, 2_5_2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi, netcdf-c, netcdf-fortran, parallel-netcdf
Description:
The Parallel IO libraries (PIO) are high-level parallel I/O C and Fortran libraries for applications that need to do netCDF I/O from large numbers of processors on a HPC system.

parallelmergetree

Homepage:
Spack package:
Versions:
1.1.2, 1.1.1, 1.1.0, 1.0.2, 1.0.0
Build Dependencies:
cmake, babelflow
Link Dependencies:
babelflow
Description:
A multi-runtime implementation of a distributed merge tree segmentation algorithm. The implementation relies on the framework BabelFlow, which allows to execute the algorithm on different runtime systems.

paraver

Homepage:
Spack package:
Versions:
4.6.3, 4.6.2
Build Dependencies:
boost, wxwidgets, wxpropgrid, libxml2, zlib
Link Dependencies:
boost, wxwidgets, wxpropgrid, libxml2, zlib
Description:
"A very powerful performance visualization and analysis tool based on traces that can be used to analyse any information that is expressed on its input trace format. Traces for parallel MPI, OpenMP and other programs can be genereated with Extrae. Note: This package is deprecated in favor of wxparaver

paraview

Homepage:
Spack package:
Versions:
master, 5.10.1, 5.10.0, 5.9.1, 5.9.0, 5.8.1, 5.8.0, 5.7.0, 5.6.2, 5.6.0, 5.5.2, 5.5.1, 5.5.0, 5.4.1, 5.4.0, 5.3.0, 5.2.0, 5.1.2, 5.0.1, 4.4.0
Build Dependencies:
cuda, cmake, ninja, python, py-numpy, py-mpi4py, mpi, qt, osmesa, gl, libxt, bzip2, double-conversion, expat, eigen, freetype, hdf5, adios2, jpeg, jsoncpp, libogg, libpng, libtheora, libtiff, netcdf-c, pegtl, protobuf, libxml2, lz4, xz, zlib, pugixml, py-setuptools, pil, cli11, nlohmann-json, proj
Link Dependencies:
cuda, mpi, qt, osmesa, gl, libxt, bzip2, double-conversion, expat, eigen, freetype, hdf5, adios2, jpeg, jsoncpp, libogg, libpng, libtheora, libtiff, netcdf-c, pegtl, protobuf, libxml2, lz4, xz, zlib, pugixml, py-setuptools, pil, cli11, nlohmann-json, proj
Run Dependencies:
python, py-numpy, py-mpi4py, py-matplotlib, py-pandas
Description:
ParaView is an open-source, multi-platform data analysis and visualization application. This package includes the Catalyst in-situ library for versions 5.7 and greater, otherwise use the catalyst package.

parflow

Homepage:
Spack package:
Versions:
develop, 3.9.0, 3.8.0
Build Dependencies:
cmake, tcl, mpi, hdf5, netcdf-c, silo, hypre
Link Dependencies:
tcl, mpi, hdf5, netcdf-c, silo, hypre
Description:
ParFlow is an open-source parallel watershed simulator which includes overland flow, complex topology, heterogeneity and coupled land-surface processes.

parmetis

Homepage:
Spack package:
Versions:
4.0.3, 4.0.2
Build Dependencies:
cmake, mpi, metis
Link Dependencies:
mpi, metis
Description:
ParMETIS is an MPI-based parallel library that implements a variety of algorithms for partitioning unstructured graphs, meshes, and for computing fill-reducing orderings of sparse matrices.

parmgridgen

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
MGRIDGEN is a serial library written entirely in ANSI C that implements (serial) algorithms for obtaining a sequence of successive coarse grids that are well-suited for geometric multigrid methods. ParMGridGen is the parallel version of MGridGen.

parmmg

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0, 1.0.0
Build Dependencies:
cmake, mmg, metis, vtk, mpi
Link Dependencies:
mmg, metis, vtk, mpi
Description:
ParMMG is a parallel remesher based on MMG

parquet-cpp

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
cmake, arrow, boost, pkgconfig, thrift
Link Dependencies:
arrow, boost, thrift
Description:
C++ bindings for the Apache Parquet columnar data format.

parquet-format

Homepage:
Spack package:
Versions:
2.8.0, 2.7.0
Build Dependencies:
java, maven, thrift
Link Dependencies:
thrift
Run Dependencies:
java
Description:
ParquetFormat is a columnar storage format that supports nested data.

parsec

Homepage:
Spack package:
Versions:
master, 3.0.2012, 1.1.0
Build Dependencies:
cuda, cmake, python, flex, bison, hwloc, mpi, papi, py-cython, py-pandas, py-matplotlib, py-tables
Link Dependencies:
cuda, hwloc, mpi, papi
Run Dependencies:
python, py-cython, py-pandas, py-matplotlib, py-tables
Description:
PaRSEC: the Parallel Runtime Scheduler and Execution Controller PaRSEC is a runtime and a programming toolbox that support the design and parallel execution of micro-tasks on distributed, heterogeneous systems.

parsimonator

Homepage:
Spack package:
Versions:
1.0.2
Description:
Parsimonator is a no-frills light-weight implementation for building starting trees under parsimony for RAxML.

parsplice

Homepage:
Spack package:
Versions:
develop, 1.1, multisplice
Build Dependencies:
cmake, berkeley-db, nauty, boost, mpi, eigen, lammps
Link Dependencies:
berkeley-db, nauty, boost, mpi, eigen, lammps
Description:
ParSplice code implements the Parallel Trajectory Splicing algorithm

partitionfinder

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
python, py-numpy, py-pandas, py-tables, py-pyparsing, py-scipy, py-scikit-learn
Run Dependencies:
python, py-numpy, py-pandas, py-tables, py-pyparsing, py-scipy, py-scikit-learn
Description:
PartitionFinder is free open source software to select best-fit partitioning schemes and models of molecular evolution for phylogenetic analyses.

pasta

Homepage:
Spack package:
Versions:
1.8.3
Build Dependencies:
python, py-dendropy, java
Link Dependencies:
python, py-dendropy, java
Description:
PASTA (Practical Alignment using SATe and Transitivity)

pastix

Homepage:
Spack package:
Versions:
master, 6.2.1
Build Dependencies:
cuda, cmake, pkgconfig, hwloc, lapack, openblas, metis, scotch, starpu, mpi
Link Dependencies:
cuda, hwloc, lapack, openblas, metis, scotch, starpu, mpi
Description:
a high performance parallel solver for very large sparse linear systems based on direct methods

patch

Homepage:
Spack package:
Versions:
2.7.6, 2.7.5
Build Dependencies:
gnuconfig
Description:
Patch takes a patch file containing a difference listing produced by the diff program and applies those differences to one or more original files, producing patched versions.

patchelf

Homepage:
Spack package:
Versions:
0.14.5, 0.14.3, 0.14.2, 0.14.1, 0.14, 0.13.1, 0.13, 0.12, 0.11, 0.10, 0.9, 0.8
Build Dependencies:
gnuconfig
Description:
PatchELF is a small utility to modify the dynamic linker and RPATH of ELF executables.

patchutils

Homepage:
Spack package:
Versions:
0.4.2, 0.4.0, 0.3.4
Build Dependencies:
gnuconfig
Description:
This is patchutils, a collection of tools that operate on patch files.

pathfinder

Homepage:
Spack package:
Versions:
1.0.0
Description:
Proxy Application. Signature search.

pax-utils

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig
Description:
ELF utils that can check files for security relevant properties

pbbam

Homepage:
Spack package:
Versions:
0.18.0
Build Dependencies:
cmake, zlib, boost, htslib, doxygen
Link Dependencies:
zlib, boost, htslib, doxygen
Description:
The pbbam software package provides components to create, query, & edit PacBio BAM files and associated indices. These components include a core C++ library, bindings for additional languages, and command-line utilities.

pbmpi

Homepage:
Spack package:
Versions:
partition
Build Dependencies:
mpi, libfabric
Link Dependencies:
mpi, libfabric
Description:
A Bayesian software for phylogenetic reconstruction using mixture models

pbsuite

Homepage:
Spack package:
Versions:
15.8.24
Run Dependencies:
blasr, python, py-networkx
Description:
PBJelly is a highly automated pipeline that aligns long sequencing reads (such as PacBio RS reads or long 454 reads in fasta format) to high- confidence draft assembles.

pciutils

Homepage:
Spack package:
Versions:
3.7.0, 3.6.4, 3.6.3
Description:
This package contains the PCI Utilities.

pcl

Homepage:
Spack package:
Versions:
1.11.1
Build Dependencies:
cmake, eigen, flann, boost
Link Dependencies:
eigen, flann, boost
Description:
The Point Cloud Library (PCL) is a standalone, large scale, open project for 2D/3D image and point cloud processing.

pcma

Homepage:
Spack package:
Versions:
2.0
Description:
PCMA is a progressive multiple sequence alignment program that combines two different alignment strategies.

pcre

Homepage:
Spack package:
Versions:
8.45, 8.44, 8.43, 8.42, 8.41, 8.40, 8.39, 8.38
Build Dependencies:
gnuconfig
Description:
The PCRE package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.

pcre2

Homepage:
Spack package:
Versions:
10.39, 10.36, 10.35, 10.31, 10.20
Build Dependencies:
gnuconfig
Description:
The PCRE2 package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.

pdc

Homepage:
Spack package:
Versions:
develop, stable, 0.3, 0.2, 0.1
Build Dependencies:
cmake, libfabric, mercury, mpi
Link Dependencies:
libfabric, mercury, mpi
Description:
Proactive Data Containers (PDC) software provides an object-centric API and a runtime system with a set of data object management services. These services allow placing data in the memory and storage hierarchy, performing data movement asynchronously, and providing scalable metadata operations to find data objects.

pdf2svg

Homepage:
Spack package:
Versions:
0.2.3, 0.2.2
Build Dependencies:
gnuconfig, pkgconfig, cairo, poppler
Link Dependencies:
cairo, poppler
Description:
A simple PDF to SVG converter using the Poppler and Cairo libraries.

pdftk

Homepage:
Spack package:
Versions:
2.02
Build Dependencies:
eclipse-gcj-parser
Description:
PDFtk Server is a command-line tool for working with PDFs. It is commonly used for client-side scripting or server-side processing of PDFs.

pdsh

Homepage:
Spack package:
Versions:
2.31
Build Dependencies:
gnuconfig
Description:
PDSH: a high performance, parallel remote shell utility

pdt

Homepage:
Spack package:
Versions:
3.25.1, 3.25, 3.24, 3.23, 3.22.1, 3.22, 3.21, 3.20, 3.19, 3.18.1
Build Dependencies:
gnuconfig
Description:
Program Database Toolkit (PDT) is a framework for analyzing source code written in several programming languages and for making rich program knowledge accessible to developers of static and dynamic analysis tools. PDT implements a standard program representation, the program database (PDB), that can be accessed in a uniform way through a class library supporting common PDB operations.

pegtl

Homepage:
Spack package:
Versions:
master, 3.2.0, 2.8.3, 2.1.4, 2.0.0
Build Dependencies:
cmake
Description:
The Parsing Expression Grammar Template Library (PEGTL) is a zero- dependency C++11 header-only library for creating parsers according to a Parsing Expression Grammar (PEG).

pennant

Homepage:
Spack package:
Versions:
0.9, 0.8, 0.7, 0.6, 0.5, 0.4
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
PENNANT is an unstructured mesh physics mini-app designed for advanced architecture research. It contains mesh data structures and a few physics algorithms adapted from the LANL rad-hydro code FLAG, and gives a sample of the typical memory access patterns of FLAG.

percept

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, googletest, opennurbs, boost, yaml-cpp, trilinos
Link Dependencies:
googletest, opennurbs, boost, yaml-cpp, trilinos
Description:
Parallel mesh refinement and adaptivity tools for the finite element method.

percona-server

Homepage:
Spack package:
Versions:
8.0.20-11, 8.0.19-10, 8.0.18-9
Build Dependencies:
cmake, boost, openssl, ncurses, readline, openldap, libtirpc, curl, bison, flex, rpcsvc-proto
Link Dependencies:
boost, openssl, ncurses, readline, openldap, libtirpc, curl, rpcsvc-proto
Description:
Percona Server is a branch of MySQL 8.0 bringing higher performance, reliability and more features.

perfstubs

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Description:
Profiling API for adding tool instrumentation support to any project. This was motivated by the need to quickly add instrumentation to the [ADIOS2](https://github.com/ornladios/ADIOS2) library without adding a build dependency, or tying to a specific measurement tool. The initial prototype implementation was tied to TAU, but evolved to this more generic version, which was extracted as a separate repository for testing and demonstration purposes.

perl

Homepage:
Spack package:
Versions:
5.35.0, 5.34.1, 5.34.0, 5.33.3, 5.32.1, 5.32.0, 5.31.7, 5.31.4, 5.30.3, 5.30.2, 5.30.1, 5.30.0, 5.28.0, 5.26.2, 5.24.1, 5.22.4, 5.22.3, 5.22.2, 5.22.1, 5.22.0, 5.20.3, 5.18.4, 5.16.3
Build Dependencies:
gdbm, berkeley-db, bzip2, zlib
Link Dependencies:
gdbm, berkeley-db, bzip2, zlib
Description:
Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.

perl-acme-damn

Homepage:
Spack package:
Versions:
0.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Acme::Damn provides a single routine, damn(), which takes a blessed reference (a Perl object), and unblesses it, to return the original reference.

perl-algorithm-diff

Homepage:
Spack package:
Versions:
1.1903
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Compute 'intelligent' differences between two files / lists

perl-alien-build

Homepage:
Spack package:
Versions:
1.86
Build Dependencies:
perl, perl-capture-tiny, perl-ffi-checklib, perl-file-which, perl-file-chdir, perl-path-tiny
Run Dependencies:
perl, perl-capture-tiny, perl-ffi-checklib, perl-file-which, perl-file-chdir, perl-path-tiny
Description:
This module provides tools for building external (non-CPAN) dependencies for CPAN. It is mainly designed to be used at install time of a CPAN client, and work closely with Alien::Base which is used at runtime.

perl-alien-libxml2

Homepage:
Spack package:
Versions:
0.10_01
Build Dependencies:
perl, libxml2, perl-alien-build, pkgconfig
Link Dependencies:
libxml2
Run Dependencies:
perl, perl-alien-build
Description:
This module provides libxml2 for other modules to use.

perl-alien-svn

Homepage:
Spack package:
Versions:
1.8.11.0, 1.7.19.0, 1.7.17.1, 1.7.17.0, 1.7.3.1, 1.7.3.0, 1.6.12.1
Build Dependencies:
perl, perl-module-build, apr, apr-util, sqlite, zlib, libbsd
Link Dependencies:
apr-util, zlib, libbsd
Run Dependencies:
perl
Description:
Perl SVN extension.

perl-app-cmd

Homepage:
Spack package:
Versions:
0.331
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Write command line apps with less suffering

perl-array-utils

Homepage:
Spack package:
Versions:
0.5
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Small utils for array manipulation

perl-b-hooks-endofscope

Homepage:
Spack package:
Versions:
0.21
Build Dependencies:
perl, perl-sub-exporter-progressive
Run Dependencies:
perl, perl-sub-exporter-progressive
Description:
Execute code after a scope finished compilation.

perl-bio-searchio-hmmer

Homepage:
Spack package:
Versions:
1.7.3
Build Dependencies:
perl, perl-bioperl, perl-io-string
Run Dependencies:
perl, perl-bioperl, perl-io-string
Description:
BioPerl parser to HMMER output.

perl-bioperl

Homepage:
Spack package:
Versions:
1.007002, 1.7.6
Build Dependencies:
perl, perl-module-build, perl-uri, perl-io-string, perl-data-stag, perl-test-most, perl-error, perl-graph, perl-http-message, perl-io-stringy, perl-ipc-run, perl-list-moreutils, perl-set-scalar, perl-test-requiresinternet, perl-xml-dom, perl-xml-dom-xpath, perl-xml-libxml, perl-xml-sax, perl-xml-sax-base, perl-xml-sax-writer, perl-xml-twig, perl-xml-writer, perl-yaml, perl-libwww-perl, perl-libxml-perl
Run Dependencies:
perl, perl-module-build, perl-uri, perl-io-string, perl-data-stag, perl-test-most, perl-error, perl-graph, perl-http-message, perl-io-stringy, perl-ipc-run, perl-list-moreutils, perl-set-scalar, perl-test-requiresinternet, perl-xml-dom, perl-xml-dom-xpath, perl-xml-libxml, perl-xml-sax, perl-xml-sax-base, perl-xml-sax-writer, perl-xml-twig, perl-xml-writer, perl-yaml, perl-libwww-perl, perl-libxml-perl
Description:
BioPerl is the product of a community effort to produce Perl code which is useful in biology. Examples include Sequence objects, Alignment objects and database searching objects. These objects not only do what they are advertised to do in the documentation, but they also interact - Alignment objects are made from the Sequence objects, Sequence objects have access to Annotation and SeqFeature objects and databases, Blast objects can be converted to Alignment objects, and so on. This means that the objects provide a coordinated and extensible framework to do computational biology. BioPerl development focuses on Perl classes, or code that is used to create objects representing biological entities. There are scripts provided in the scripts/ and examples/ directories but scripts are not the main focus of the BioPerl developers. Of course, as the objects do most of the hard work for you, all you have to do is combine a number of objects together sensibly to make useful scripts. The intent of the BioPerl development effort is to make reusable tools that aid people in creating their own sites or job-specific applications. The BioPerl website at https://bioperl.org/ also attempts to maintain links and archives of standalone bio-related Perl tools that are not affiliated or related to the core BioPerl effort. Check the site for useful code ideas and contribute your own if possible.

perl-bit-vector

Homepage:
Spack package:
Versions:
7.4
Build Dependencies:
perl, perl-carp-clan
Run Dependencies:
perl, perl-carp-clan
Description:
Efficient bit vector, set of integers and "big int" math library

perl-cairo

Homepage:
Spack package:
Versions:
1.106
Build Dependencies:
perl, cairo, perl-extutils-depends, perl-extutils-pkgconfig
Link Dependencies:
cairo, perl-extutils-depends, perl-extutils-pkgconfig
Run Dependencies:
perl
Description:
Perl interface to the cairo 2d vector graphics library

perl-capture-tiny

Homepage:
Spack package:
Versions:
0.46
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Capture STDOUT and STDERR from Perl, XS or external programs

perl-carp-clan

Homepage:
Spack package:
Versions:
6.06
Build Dependencies:
perl, perl-test-exception, perl-sub-uplevel
Run Dependencies:
perl, perl-test-exception, perl-sub-uplevel
Description:
Report errors from perspective of caller of a "clan" of modules

perl-cgi

Homepage:
Spack package:
Versions:
4.53, 4.40, 4.39, 4.38, 4.37
Build Dependencies:
perl, perl-html-parser
Run Dependencies:
perl, perl-html-parser
Description:
CGI - Handle Common Gateway Interface requests and responses CGI was included in the Perl distribution from 5.4 to 5.20 but has since been removed.

perl-class-data-inheritable

Homepage:
Spack package:
Versions:
0.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
For creating accessor/mutators to class data.

perl-class-inspector

Homepage:
Spack package:
Versions:
1.32
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Get information about a class and its structure

perl-class-load

Homepage:
Spack package:
Versions:
0.24
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A working (require "Class::Name") and more

perl-class-load-xs

Homepage:
Spack package:
Versions:
0.10
Build Dependencies:
perl, perl-class-load
Run Dependencies:
perl, perl-class-load
Description:
This module provides an XS implementation for portions of Class::Load.

perl-clone

Homepage:
Spack package:
Versions:
0.41
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Clone - recursively copy Perl datatypes

perl-clone-choose

Homepage:
Spack package:
Versions:
0.010
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Checks several different modules which provides a clone() function and selects an appropriate one.

perl-compress-raw-bzip2

Homepage:
Spack package:
Versions:
2.081
Build Dependencies:
perl, bzip2, perl-extutils-makemaker
Link Dependencies:
bzip2
Run Dependencies:
perl
Description:
A low-Level Interface to bzip2 compression library.

perl-compress-raw-zlib

Homepage:
Spack package:
Versions:
2.081
Build Dependencies:
perl, zlib, perl-extutils-makemaker
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
A low-Level Interface to zlib compression library.

perl-config-general

Homepage:
Spack package:
Versions:
2.63
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Config::General - Generic Config Module

perl-contextual-return

Homepage:
Spack package:
Versions:
0.004014
Build Dependencies:
perl, perl-want
Link Dependencies:
perl-want
Run Dependencies:
perl
Description:
Create context-sensitive return values

perl-cpan-meta-check

Homepage:
Spack package:
Versions:
0.014
Build Dependencies:
perl, perl-test-deep
Run Dependencies:
perl, perl-test-deep
Description:
This module verifies if requirements described in a CPAN::Meta object are present..

perl-data-dumper

Homepage:
Spack package:
Versions:
2.173
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Stringified perl data structures, suitable for both printing and eval

perl-data-optlist

Homepage:
Spack package:
Versions:
0.110
Build Dependencies:
perl, perl-sub-install
Run Dependencies:
perl, perl-sub-install
Description:
Parse and validate simple name/value option pairs

perl-data-stag

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl, perl-io-string
Run Dependencies:
perl, perl-io-string
Description:
Structured Tags datastructures

perl-date-manip

Homepage:
Spack package:
Versions:
6.82
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Date::Manip - Date manipulation routines Date::Manip is a series of modules designed to make any common date/time operation easy to do. Operations such as comparing two times, determining a date a given amount of time from another, or parsing international times are all easily done. It deals with time as it is used in the Gregorian calendar (the one currently in use) with full support for time changes due to daylight saving time.

perl-db-file

Homepage:
Spack package:
Versions:
1.840
Build Dependencies:
perl, perl-extutils-makemaker, berkeley-db
Run Dependencies:
perl
Description:
DB_File is a module which allows Perl programs to make use of the facilities provided by Berkeley DB version 1.x (if you have a newer version of DB, see "Using DB_File with Berkeley DB version 2 or greater"). It is assumed that you have a copy of the Berkeley DB manual pages at hand when reading this documentation. The interface defined here mirrors the Berkeley DB interface closely.

perl-dbd-mysql

Homepage:
Spack package:
Versions:
4.043
Build Dependencies:
perl, perl-test-deep, perl-dbi, mysql-client
Link Dependencies:
mysql-client
Run Dependencies:
perl, perl-test-deep, perl-dbi
Description:
MySQL driver for the Perl5 Database Interface (DBI)

perl-dbd-pg

Homepage:
Spack package:
Versions:
3.10.0
Build Dependencies:
perl, postgresql, perl-dbi
Link Dependencies:
postgresql
Run Dependencies:
perl, perl-dbi
Description:
DBD::Pg is a Perl module that works with the DBI module to provide access to PostgreSQL databases.

perl-dbd-sqlite

Homepage:
Spack package:
Versions:
1.59_01, 1.58, 1.57_01, 1.56
Build Dependencies:
perl, perl-dbi
Run Dependencies:
perl, perl-dbi
Description:
DBD::SQLite - Self-contained RDBMS in a DBI Driver

perl-dbi

Homepage:
Spack package:
Versions:
1.636
Build Dependencies:
perl
Run Dependencies:
perl
Description:
The DBI is the standard database interface module for Perl. It defines a set of methods, variables and conventions that provide a consistent database interface independent of the actual database being used.

perl-devel-cycle

Homepage:
Spack package:
Versions:
1.12
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Find memory cycles in objects

perl-devel-globaldestruction

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Makes Perl's global destruction less tricky to deal with

perl-devel-overloadinfo

Homepage:
Spack package:
Versions:
0.005, 0.004
Build Dependencies:
perl, perl-mro-compat
Run Dependencies:
perl, perl-mro-compat
Description:
Returns information about overloaded operators for a given class

perl-devel-stacktrace

Homepage:
Spack package:
Versions:
2.02
Build Dependencies:
perl
Run Dependencies:
perl
Description:
An object representing a stack trace.

perl-devel-symdump

Homepage:
Spack package:
Versions:
2.0604
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Devel::Symdump - dump symbol names or the symbol table

perl-digest-md5

Homepage:
Spack package:
Versions:
2.55
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl interface to the MD5 Algorithm

perl-dist-checkconflicts

Homepage:
Spack package:
Versions:
0.11
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Declare version conflicts for your dist

perl-encode-locale

Homepage:
Spack package:
Versions:
1.05
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Determine the locale encoding

perl-error

Homepage:
Spack package:
Versions:
0.17028
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
The Error package provides two interfaces. Firstly Error provides a procedural interface to exception handling. Secondly Error is a base class for errors/exceptions that can either be thrown, for subsequent catch, or can simply be recorded.

perl-eval-closure

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Safely and cleanly create closures via string eval

perl-exception-class

Homepage:
Spack package:
Versions:
1.43
Build Dependencies:
perl, perl-devel-stacktrace, perl-class-data-inheritable
Run Dependencies:
perl, perl-devel-stacktrace, perl-class-data-inheritable
Description:
A module that allows you to declare real exception classes in Perl

perl-exporter-lite

Homepage:
Spack package:
Versions:
0.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Exporter::Lite is an alternative to Exporter, intended to provide a lightweight subset of the most commonly-used functionality. It supports import(), @EXPORT and @EXPORT_OK and not a whole lot else.

perl-exporter-tiny

Homepage:
Spack package:
Versions:
1.000000
Build Dependencies:
perl
Run Dependencies:
perl
Description:
An exporter with the features of Sub::Exporter but only core dependencies

perl-extutils-config

Homepage:
Spack package:
Versions:
0.008
Build Dependencies:
perl
Run Dependencies:
perl
Description:
ExtUtils::Config - A wrapper for perl's configuration

perl-extutils-depends

Homepage:
Spack package:
Versions:
0.405
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Easily build XS extensions that depend on XS extensions

perl-extutils-helpers

Homepage:
Spack package:
Versions:
0.026
Build Dependencies:
perl
Run Dependencies:
perl
Description:
ExtUtils::Helpers - Various portability utilities for module builders

perl-extutils-installpaths

Homepage:
Spack package:
Versions:
0.012
Build Dependencies:
perl, perl-extutils-config
Run Dependencies:
perl, perl-extutils-config
Description:
ExtUtils::InstallPaths - Build.PL install path logic made easy

perl-extutils-makemaker

Homepage:
Spack package:
Versions:
7.24
Build Dependencies:
perl
Run Dependencies:
perl
Description:
ExtUtils::MakeMaker - Create a module Makefile. This utility is designed to write a Makefile for an extension module from a Makefile.PL. It is based on the Makefile.SH model provided by Andy Dougherty and the perl5-porters.

perl-extutils-pkgconfig

Homepage:
Spack package:
Versions:
1.16
Build Dependencies:
perl, pkgconfig
Run Dependencies:
perl, pkgconfig
Description:
simplistic interface to pkg-config

perl-ffi-checklib

Homepage:
Spack package:
Versions:
0.25
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module checks whether a particular dynamic library is available for FFI to use. It is modeled heavily on Devel::CheckLib, but will find dynamic libraries even when development packages are not installed. It also provides a find_lib function that will return the full path to the found dynamic library, which can be feed directly into FFI::Platypus or another FFI system.

perl-file-chdir

Homepage:
Spack package:
Versions:
0.1011
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl's chdir() has the unfortunate problem of being very, very, very global. If any part of your program calls chdir() or if any library you use calls chdir(), it changes the current working directory for the *whole* program. This sucks. File::chdir gives you an alternative, $CWD and @CWD. These two variables combine all the power of chdir(), File::Spec and Cwd.

perl-file-copy-recursive

Homepage:
Spack package:
Versions:
0.40, 0.38
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl extension for recursively copying files and directories

perl-file-homedir

Homepage:
Spack package:
Versions:
1.004
Build Dependencies:
perl, perl-file-which
Run Dependencies:
perl, perl-file-which
Description:
Find your home and other directories on any platform

perl-file-listing

Homepage:
Spack package:
Versions:
6.04
Build Dependencies:
perl, perl-http-date
Run Dependencies:
perl, perl-http-date
Description:
Parse directory listing

perl-file-pushd

Homepage:
Spack package:
Versions:
1.014
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Change directory temporarily for a limited scope

perl-file-sharedir-install

Homepage:
Spack package:
Versions:
0.11
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Install shared files

perl-file-slurp

Homepage:
Spack package:
Versions:
9999.32
Build Dependencies:
perl
Run Dependencies:
perl
Description:
File::Slurp - Simple and Efficient Reading/Writing/Modifying of Complete Files

perl-file-slurp-tiny

Homepage:
Spack package:
Versions:
0.004
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A simple, sane and efficient file slurper

perl-file-slurper

Homepage:
Spack package:
Versions:
0.011
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A simple, sane and efficient module to slurp a file

perl-file-which

Homepage:
Spack package:
Versions:
1.22
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl implementation of the which utility as an API

perl-font-ttf

Homepage:
Spack package:
Versions:
1.06
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl module for TrueType Font hacking

perl-forks

Homepage:
Spack package:
Versions:
0.36
Build Dependencies:
perl, perl-acme-damn, perl-devel-symdump, perl-list-moreutils, perl-sys-sigaction
Run Dependencies:
perl, perl-acme-damn, perl-devel-symdump, perl-list-moreutils, perl-sys-sigaction
Description:
The "forks" pragma allows a developer to use threads without having to have a threaded perl, or to even run 5.8.0 or higher.

perl-fth

Homepage:
Spack package:
Versions:
0.526, 0.525, 0.524, 0.523, 0.522, 0.521, 0.520, 0.519, 0.518, 0.517
Build Dependencies:
dos2unix
Run Dependencies:
perl, perl-cgi, emacs, hevea, texlive, coreutils
Description:
Ftagshtml is a Fortran (and simple C) to HTML browsing, resolves static interface overload. It can handle some LaTeX comments inside the source files. It only needs to be put somewhere into your disk since it uses Perl. It also provides javatex2.pl initmak.pl getin.pl tex3ht.pl and view.pl: (1) javatex2 complements latex2html to make nice browsing, (2) initmak makes fortran 90 dependencies, either full deps or partial (when interface is not modified it is silly to recompile everything) (3) getin is an advanced search tool for Fortran variables and calls, (4) view.pl is used for CGI search when source is on http server.

perl-gd

Homepage:
Spack package:
Versions:
2.53
Build Dependencies:
perl, perl-module-build, perl-extutils-makemaker, perl-extutils-pkgconfig, libgd
Link Dependencies:
libgd
Run Dependencies:
perl, perl-extutils-makemaker, perl-extutils-pkgconfig
Description:
Interface to Gd Graphics Library

perl-gdgraph

Homepage:
Spack package:
Versions:
1.4308
Build Dependencies:
perl, perl-capture-tiny, perl-test-exception, perl-gdtextutil, perl-gd
Run Dependencies:
perl, perl-capture-tiny, perl-test-exception, perl-gdtextutil, perl-gd
Description:
Graph Plotting Module for Perl 5

perl-gdgraph-histogram

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
perl
Run Dependencies:
perl
Description:
GD::Graph::histogram extends the GD::Graph module to create histograms. The module allow creation of count or percentage histograms.

perl-gdtextutil

Homepage:
Spack package:
Versions:
0.86
Build Dependencies:
perl, perl-gd
Run Dependencies:
perl, perl-gd
Description:
Text utilities for use with GD

perl-getopt-tabular

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Getopt::Tabular is a Perl 5 module for table-driven argument parsing, vaguely inspired by John Ousterhout's Tk_ParseArgv.

perl-graph

Homepage:
Spack package:
Versions:
0.9704
Build Dependencies:
perl
Link Dependencies:
perl
Run Dependencies:
perl
Description:
Graph data structures and algorithms

perl-graph-readwrite

Homepage:
Spack package:
Versions:
2.09
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Write out directed graph in Dot format

perl-hash-merge

Homepage:
Spack package:
Versions:
0.300
Build Dependencies:
perl, perl-scalar-list-utils, perl-clone-choose
Run Dependencies:
perl, perl-scalar-list-utils, perl-clone-choose
Description:
Hash::Merge merges two arbitrarily deep hashes into a single hash.

perl-html-parser

Homepage:
Spack package:
Versions:
3.72
Build Dependencies:
perl, perl-html-tagset
Run Dependencies:
perl, perl-html-tagset
Description:
HTML parser class

perl-html-tagset

Homepage:
Spack package:
Versions:
3.20
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Data tables useful in parsing HTML

perl-http-cookies

Homepage:
Spack package:
Versions:
6.04
Build Dependencies:
perl, perl-uri, perl-http-message
Run Dependencies:
perl, perl-uri, perl-http-message
Description:
HTTP cookie jars

perl-http-daemon

Homepage:
Spack package:
Versions:
6.01
Build Dependencies:
perl, perl-lwp-mediatypes, perl-http-message, perl-http-date, perl-module-build-tiny
Run Dependencies:
perl, perl-lwp-mediatypes, perl-http-message, perl-http-date
Description:
A simple http server class

perl-http-date

Homepage:
Spack package:
Versions:
6.02
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Date conversion routines

perl-http-message

Homepage:
Spack package:
Versions:
6.13
Build Dependencies:
perl, perl-lwp-mediatypes, perl-encode-locale, perl-io-html, perl-try-tiny, perl-uri, perl-http-date
Run Dependencies:
perl, perl-lwp-mediatypes, perl-encode-locale, perl-io-html, perl-try-tiny, perl-uri, perl-http-date
Description:
HTTP style message (base class)

perl-http-negotiate

Homepage:
Spack package:
Versions:
6.01
Build Dependencies:
perl, perl-http-message
Run Dependencies:
perl, perl-http-message
Description:
Choose a variant to serve

perl-inline

Homepage:
Spack package:
Versions:
0.80
Build Dependencies:
perl, perl-test-warn
Run Dependencies:
perl, perl-test-warn
Description:
Write Perl Subroutines in Other Programming Languages

perl-inline-c

Homepage:
Spack package:
Versions:
0.78
Build Dependencies:
perl, perl-yaml-libyaml, perl-parse-recdescent, perl-inline, perl-pegex, perl-file-copy-recursive
Run Dependencies:
perl, perl-yaml-libyaml, perl-parse-recdescent, perl-inline, perl-pegex, perl-file-copy-recursive
Description:
C Language Support for Inline

perl-io-all

Homepage:
Spack package:
Versions:
0.87
Build Dependencies:
perl
Run Dependencies:
perl
Description:
IO::All combines all of the best Perl IO modules into a single nifty object oriented interface to greatly simplify your everyday Perl IO idioms. It exports a single function called io, which returns a new IO::All object. And that object can do it all! The IO::All object is a proxy for IO::File, IO::Dir, IO::Socket, Tie::File, File::Spec, File::Path, File::MimeInfo and File::ReadBackwards; as well as all the DBM and MLDBM modules. You can use most of the methods found in these classes and in IO::Handle (which they inherit from). IO::All adds dozens of other helpful idiomatic methods including file stat and manipulation functions. IO::All is pluggable, and modules like IO::All::LWP and IO::All::Mailto add even more functionality. Optionally, every IO::All object can be tied to itself. This means that you can use most perl IO builtins on it: readline, <>, getc, print, printf, syswrite, sysread, close.

perl-io-compress

Homepage:
Spack package:
Versions:
2.081
Build Dependencies:
perl
Run Dependencies:
perl, perl-compress-raw-zlib, perl-compress-raw-bzip2
Description:
A perl library for uncompressing gzip, zip, bzip2 or lzop file/buffer.

perl-io-html

Homepage:
Spack package:
Versions:
1.001
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Open an HTML file with automatic charset detection.

perl-io-prompt

Homepage:
Spack package:
Versions:
0.997004
Build Dependencies:
perl, perl-module-build, perl-termreadkey, perl-want
Run Dependencies:
perl, perl-termreadkey, perl-want
Description:
By default, this module exports a single function prompt. It prompts the user to enter some input, and returns an object that represents the user input. You may specify various flags to the function to affect its behaviour; most notably, it defaults to automatically chomp the input, unless the -line flag is specified. Two other functions are exported at request: hand_print, which simulates hand-typing to the console; and get_input, which is the lower-level function that actually prompts the user for a suitable input. Note that this is an interim re-release. A full release with better documentation will follow in the near future. Meanwhile, please consult the examples directory from this module's CPAN distribution to better understand how to make use of this module.

perl-io-sessiondata

Homepage:
Spack package:
Versions:
1.03
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A wrapper around a single IO::Socket object

perl-io-socket-ssl

Homepage:
Spack package:
Versions:
2.052
Build Dependencies:
perl, perl-net-ssleay
Run Dependencies:
perl, perl-net-ssleay
Description:
SSL sockets with IO::Socket interface

perl-io-string

Homepage:
Spack package:
Versions:
1.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Emulate file interface for in-core strings

perl-io-stringy

Homepage:
Spack package:
Versions:
2.111
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This toolkit primarily provides modules for performing both traditional and object-oriented i/o) on things other than normal filehandles; in particular, IO::Scalar, IO::ScalarArray, and IO::Lines. In the more- traditional IO::Handle front, we have IO::AtomicFile which may be used to painlessly create files which are updated atomically. And in the "this-may-prove-useful" corner, we have IO::Wrap, whose exported wraphandle() function will clothe anything that's not a blessed object in an IO::Handle-like wrapper... so you can just use OO syntax and stop worrying about whether your function's caller handed you a string, a globref, or a FileHandle.

perl-io-tty

Homepage:
Spack package:
Versions:
1.13_01
Build Dependencies:
perl
Run Dependencies:
perl
Description:
IO::Tty is used internally by IO::Pty to create a pseudo-tty. You wouldn't want to use it directly except to import constants, use IO::Pty. For a list of importable constants, see IO::Tty::Constant.

perl-ipc-run

Homepage:
Spack package:
Versions:
20180523.0
Build Dependencies:
perl, perl-io-tty, perl-readonly
Run Dependencies:
perl, perl-io-tty
Description:
IPC::Run allows you to run and interact with child processes using files, pipes, and pseudo-ttys. Both system()-style and scripted usages are supported and may be mixed. Likewise, functional and OO API styles are both supported and may be mixed.

perl-json

Homepage:
Spack package:
Versions:
2.97001
Build Dependencies:
perl
Run Dependencies:
perl
Description:
JSON (JavaScript Object Notation) encoder/decoder

perl-libwww-perl

Homepage:
Spack package:
Versions:
6.33, 6.29
Build Dependencies:
perl, perl-encode-locale, perl-file-listing, perl-html-parser, perl-http-cookies, perl-http-daemon, perl-http-date, perl-http-message, perl-http-negotiate, perl-lwp-mediatypes, perl-net-http, perl-try-tiny, perl-uri, perl-www-robotrules
Run Dependencies:
perl, perl-encode-locale, perl-file-listing, perl-html-parser, perl-http-cookies, perl-http-daemon, perl-http-date, perl-http-message, perl-http-negotiate, perl-lwp-mediatypes, perl-net-http, perl-try-tiny, perl-uri, perl-www-robotrules
Description:
The libwww-perl collection is a set of Perl modules which provides a simple and consistent application programming interface to the World- Wide Web. The main focus of the library is to provide classes and functions that allow you to write WWW clients.

perl-libxml-perl

Homepage:
Spack package:
Versions:
0.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
libxml-perl is a collection of smaller Perl modules, scripts, and documents for working with XML in Perl. libxml-perl software works in combination with XML::Parser, PerlSAX, XML::DOM, XML::Grove and others.

perl-list-moreutils

Homepage:
Spack package:
Versions:
0.428
Build Dependencies:
perl, perl-exporter-tiny, perl-list-moreutils-xs
Run Dependencies:
perl, perl-exporter-tiny, perl-list-moreutils-xs
Description:
Provide the stuff missing in List::Util

perl-list-moreutils-xs

Homepage:
Spack package:
Versions:
0.428
Build Dependencies:
perl
Run Dependencies:
perl
Description:
List::MoreUtils::XS is a backend for List::MoreUtils. Even if it's possible (because of user wishes) to have it practically independent from List::MoreUtils, it technically depend on List::MoreUtils. Since it's only a backend, the API is not public and can change without any warning.

perl-log-log4perl

Homepage:
Spack package:
Versions:
1.46
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Log4j implementation for Perl

perl-logger-simple

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
perl, perl-object-insideout
Run Dependencies:
perl, perl-object-insideout
Description:
Implementation of the Simran-Log-Log and Simran-Error-Error modules

perl-lwp-mediatypes

Homepage:
Spack package:
Versions:
6.02
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Guess media type for a file or a URL

perl-lwp-protocol-https

Homepage:
Spack package:
Versions:
6.04
Build Dependencies:
perl, perl-test-requiresinternet, perl-io-socket-ssl, perl-net-http, perl-mozilla-ca, perl-libwww-perl
Run Dependencies:
perl, perl-test-requiresinternet, perl-io-socket-ssl, perl-net-http, perl-mozilla-ca, perl-libwww-perl
Description:
Provide https support for LWP::UserAgent

perl-mailtools

Homepage:
Spack package:
Versions:
2.21
Build Dependencies:
perl, perl-timedate
Run Dependencies:
perl, perl-timedate
Description:
Perl module for handling mail

perl-math-bezier

Homepage:
Spack package:
Versions:
0.01
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Math::Bezier - solution of Bezier Curves

perl-math-cdf

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Generate probabilities and quantiles from several statistical probability functions

perl-math-cephes

Homepage:
Spack package:
Versions:
0.5305
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module provides an interface to over 150 functions of the cephes math library of Stephen Moshier.

perl-math-matrixreal

Homepage:
Spack package:
Versions:
2.13
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Implements the data type "matrix of real numbers" (and consequently also "vector of real numbers").

perl-math-round

Homepage:
Spack package:
Versions:
0.07
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Math::Round - Perl extension for rounding numbers

perl-math-vecstat

Homepage:
Spack package:
Versions:
0.08
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Math::VecStat - Some basic numeric stats on vectors

perl-mce

Homepage:
Spack package:
Versions:
1.874
Build Dependencies:
perl
Run Dependencies:
perl
Description:
MCE - Many-Core Engine for Perl providing parallel processing capabilities. MCE spawns a pool of workers and therefore does not fork a new process per each element of data. Instead, MCE follows a bank queuing model. Imagine the line being the data and bank-tellers the parallel workers. MCE enhances that model by adding the ability to chunk the next n elements from the input stream to the next available worker.

perl-mni-perllib

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
perl, perl-getopt-tabular, perl-text-format
Run Dependencies:
perl, perl-getopt-tabular, perl-text-format
Description:
MNI Perl Library for scripting long-running scientific computations

perl-module-build

Homepage:
Spack package:
Versions:
0.4224, 0.4220
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Module::Build is a system for building, testing, and installing Perl modules. It is meant to be an alternative to ExtUtils::MakeMaker. Developers may alter the behavior of the module through subclassing in a much more straightforward way than with MakeMaker. It also does not require a make on your system - most of the Module::Build code is pure- perl and written in a very cross-platform way.

perl-module-build-tiny

Homepage:
Spack package:
Versions:
0.039
Build Dependencies:
perl, perl-module-build, perl-extutils-config, perl-extutils-helpers, perl-extutils-installpaths
Run Dependencies:
perl, perl-extutils-config, perl-extutils-helpers, perl-extutils-installpaths
Description:
Module::Build::Tiny - A tiny replacement for Module::Build

perl-module-implementation

Homepage:
Spack package:
Versions:
0.09
Build Dependencies:
perl, perl-module-runtime, perl-test-fatal, perl-test-requires, perl-try-tiny
Run Dependencies:
perl, perl-module-runtime, perl-test-fatal, perl-test-requires, perl-try-tiny
Description:
Loads one of several alternate underlying implementations for a module

perl-module-runtime

Homepage:
Spack package:
Versions:
0.016
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Runtime module handling

perl-module-runtime-conflicts

Homepage:
Spack package:
Versions:
0.003
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Provide information on conflicts for Module::Runtime

perl-mozilla-ca

Homepage:
Spack package:
Versions:
20160104
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Mozilla's CA cert bundle in PEM format

perl-mro-compat

Homepage:
Spack package:
Versions:
0.13
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Provides several utilities for dealing with method resolution order.

perl-namespace-clean

Homepage:
Spack package:
Versions:
0.27
Build Dependencies:
perl, perl-b-hooks-endofscope
Run Dependencies:
perl, perl-b-hooks-endofscope
Description:
Keep imports and functions out of your namespace.

perl-net-http

Homepage:
Spack package:
Versions:
6.17
Build Dependencies:
perl, perl-uri
Run Dependencies:
perl, perl-uri
Description:
Low-level HTTP connection (client)

perl-net-scp-expect

Homepage:
Spack package:
Versions:
0.16
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Wrapper for scp that allows passwords via Expect.

perl-net-ssleay

Homepage:
Spack package:
Versions:
1.85, 1.82
Build Dependencies:
perl, openssl
Link Dependencies:
openssl
Run Dependencies:
perl
Description:
Perl extension for using OpenSSL

perl-number-format

Homepage:
Spack package:
Versions:
1.75
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Number::Format - Perl extension for formatting numbers

perl-object-insideout

Homepage:
Spack package:
Versions:
4.05
Build Dependencies:
perl, perl-module-build, perl-exception-class
Run Dependencies:
perl, perl-exception-class
Description:
Implements inside-out objects as anonymous scalar references that are blessed into a class with the scalar containing the ID for the object (usually a sequence number).

perl-package-deprecationmanager

Homepage:
Spack package:
Versions:
0.17
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Manage deprecation warnings for your distribution

perl-package-stash

Homepage:
Spack package:
Versions:
0.37
Build Dependencies:
perl, perl-test-requires, perl-test-fatal, perl-module-implementation, perl-dist-checkconflicts
Run Dependencies:
perl, perl-test-requires, perl-test-fatal, perl-module-implementation, perl-dist-checkconflicts
Description:
Routines for manipulating stashes

perl-package-stash-xs

Homepage:
Spack package:
Versions:
0.28
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Faster and more correct implementation of the Package::Stash API

perl-padwalker

Homepage:
Spack package:
Versions:
2.2
Build Dependencies:
perl
Run Dependencies:
perl
Description:
play with other peoples' lexical variables

perl-parallel-forkmanager

Homepage:
Spack package:
Versions:
1.19
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A simple parallel processing fork manager

perl-params-util

Homepage:
Spack package:
Versions:
1.07
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Simple, compact and correct param-checking functions

perl-params-validate

Homepage:
Spack package:
Versions:
1.29
Build Dependencies:
perl, perl-module-build, perl-module-implementation
Run Dependencies:
perl, perl-module-implementation
Description:
Params::Validate - Validate method/function parameters

perl-parse-recdescent

Homepage:
Spack package:
Versions:
1.967015
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Generate Recursive-Descent Parsers

perl-path-tiny

Homepage:
Spack package:
Versions:
0.108
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module provides a small, fast utility for working with file paths. It is friendlier to use than File::Spec and provides easy access to functions from several other core file handling modules. It aims to be smaller and faster than many alternatives on CPAN, while helping people do many common things in consistent and less error-prone ways.

perl-pdf-api2

Homepage:
Spack package:
Versions:
2.033
Build Dependencies:
perl, perl-test-exception, perl-test-memory-cycle, perl-font-ttf
Run Dependencies:
perl, perl-test-exception, perl-test-memory-cycle, perl-font-ttf
Description:
Facilitates the creation and modification of PDF files

perl-pegex

Homepage:
Spack package:
Versions:
0.64
Build Dependencies:
perl, perl-file-sharedir-install, perl-yaml-libyaml
Run Dependencies:
perl, perl-file-sharedir-install, perl-yaml-libyaml
Description:
Acmeist PEG Parser Framework

perl-perl-unsafe-signals

Homepage:
Spack package:
Versions:
0.03
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Quoting perl581delta: In Perl 5.8.0 the so-called "safe signals" were introduced. This means that Perl no longer handles signals immediately but instead "between opcodes", when it is safe to do so. The earlier immediate handling easily could corrupt the internal state of Perl, resulting in mysterious crashes. It's possible since perl 5.8.1 to globally disable this feature by using the PERL_SIGNALS environment variables (as specified in "PERL_SIGNALS" in perlrun); but there's no way to disable it locally, for a short period of time. That's however something you might want to do, if, for example, your Perl program calls a C routine that will potentially run for a long time and for which you want to set a timeout. This module therefore allows you to define UNSAFE_SIGNALS blocks in which signals will be handled "unsafely". Note that, no matter how short you make the unsafe block, it will still be unsafe. Use with caution.

perl-perl-version

Homepage:
Spack package:
Versions:
1.013_03
Build Dependencies:
perl, perl-file-slurp-tiny
Run Dependencies:
perl, perl-file-slurp-tiny
Description:
Parse and manipulate Perl version strings

perl-perl4-corelibs

Homepage:
Spack package:
Versions:
0.004, 0.003, 0.002, 0.001, 0.000
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Perl4::CoreLibs - libraries historically supplied with Perl 4

perl-perl6-slurp

Homepage:
Spack package:
Versions:
0.051005
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl6::Slurp - Implements the Perl 6 'slurp' built-in

perl-perlio-gzip

Homepage:
Spack package:
Versions:
0.20, 0.19
Build Dependencies:
perl
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
Perl extension to provide a PerlIO layer to gzip/gunzip

perl-perlio-utf8-strict

Homepage:
Spack package:
Versions:
0.002
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module provides a fast and correct UTF-8 PerlIO layer.

perl-readonly

Homepage:
Spack package:
Versions:
2.05
Build Dependencies:
perl, perl-module-build-tiny
Run Dependencies:
perl
Description:
Readonly - Facility for creating read-only scalars, arrays, hashes

perl-regexp-common

Homepage:
Spack package:
Versions:
2017060201
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Regexp::Common - Provide commonly requested regular expressions

perl-scalar-list-utils

Homepage:
Spack package:
Versions:
1.50
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Scalar::Util - A selection of general-utility scalar subroutines

perl-scalar-util-numeric

Homepage:
Spack package:
Versions:
0.40
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module exports a number of wrappers around perl's builtin grok_number function, which returns the numeric type of its argument, or 0 if it isn't numeric.

perl-set-intervaltree

Homepage:
Spack package:
Versions:
0.10
Build Dependencies:
perl, perl-extutils-makemaker
Run Dependencies:
perl
Description:
Set::IntervalTree uses Interval Trees to store and efficiently look up ranges using a range-based lookup.

perl-set-intspan

Homepage:
Spack package:
Versions:
1.19
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Set::IntSpan - Manages sets of integers

perl-set-scalar

Homepage:
Spack package:
Versions:
1.29
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Set::Scalar - basic set operations

perl-star-fusion

Homepage:
Spack package:
Versions:
master
Build Dependencies:
perl, star, perl-set-intervaltree, perl-dbi, perl-db-file, perl-uri
Run Dependencies:
perl, star, perl-set-intervaltree, perl-dbi, perl-db-file, perl-uri
Description:
STAR-Fusion is a component of the Trinity Cancer Transcriptome Analysis Toolkit (CTAT). STAR-Fusion uses the STAR aligner to identify candidate fusion transcripts supported by Illumina reads. STAR-Fusion further processes the output generated by the STAR aligner to map junction reads and spanning reads to a reference annotation set.

perl-statistics-basic

Homepage:
Spack package:
Versions:
1.6611
Build Dependencies:
perl, perl-number-format, perl-scalar-list-utils
Run Dependencies:
perl, perl-number-format, perl-scalar-list-utils
Description:
Statistics::Basic - A collection of very basic statistics modules

perl-statistics-descriptive

Homepage:
Spack package:
Versions:
3.0612
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Module of basic descriptive statistical functions.

perl-statistics-pca

Homepage:
Spack package:
Versions:
0.0.1
Build Dependencies:
perl, perl-module-build, perl-contextual-return, perl-text-simpletable, perl-math-matrixreal
Run Dependencies:
perl, perl-contextual-return, perl-text-simpletable, perl-math-matrixreal
Description:
A simple Perl implementation of Principal Component Analysis.

perl-sub-exporter

Homepage:
Spack package:
Versions:
0.987
Build Dependencies:
perl, perl-params-util, perl-data-optlist
Run Dependencies:
perl, perl-params-util, perl-data-optlist
Description:
A sophisticated exporter for custom-built routines

perl-sub-exporter-progressive

Homepage:
Spack package:
Versions:
0.001013
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Progressive Sub::Exporter

perl-sub-identify

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Retrieve names of code references

perl-sub-install

Homepage:
Spack package:
Versions:
0.928
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Install subroutines into packages easily

perl-sub-name

Homepage:
Spack package:
Versions:
0.21
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Name or rename a sub

perl-sub-uplevel

Homepage:
Spack package:
Versions:
0.2800
Build Dependencies:
perl
Run Dependencies:
perl
Description:
apparently run a function in a higher stack frame

perl-svg

Homepage:
Spack package:
Versions:
2.78
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl extension for generating Scalable Vector Graphics (SVG) documents.

perl-swissknife

Homepage:
Spack package:
Versions:
1.75
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
An object-oriented Perl library to handle Swiss-Prot entries

perl-sys-sigaction

Homepage:
Spack package:
Versions:
0.23
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Prior to version 5.8.0 perl implemented 'unsafe' signal handling. The reason it is consider unsafe, is that there is a risk that a signal will arrive, and be handled while perl is changing internal data structures. This can result in all kinds of subtle and not so subtle problems. For this reason it has always been recommended that one do as little as possible in a signal handler, and only variables that already exist be manipulated. Perl 5.8.0 and later versions implements 'safe' signal handling on platforms which support the POSIX sigaction() function. This is accomplished by having perl note that a signal has arrived, but deferring the execution of the signal handler until such time as it is safe to do so. Unfortunately these changes can break some existing scripts, if they depended on a system routine being interrupted by the signal's arrival. The perl 5.8.0 implementation was modified further in version 5.8.2

perl-task-weaken

Homepage:
Spack package:
Versions:
1.04
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Ensure that a platform has weaken support

perl-term-readline-gnu

Homepage:
Spack package:
Versions:
1.36
Build Dependencies:
perl, readline
Link Dependencies:
readline
Run Dependencies:
perl
Description:
Perl extension for the GNU Readline/History Library.

perl-termreadkey

Homepage:
Spack package:
Versions:
2.38, 2.37
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Term::ReadKey is a compiled perl module dedicated to providing simple control over terminal driver modes (cbreak, raw, cooked, etc.,) support for non-blocking reads, if the architecture allows, and some generalized handy functions for working with terminals. One of the main goals is to have the functions as portable as possible, so you can just plug in "use Term::ReadKey" on any architecture and have a good likelihood of it working.

perl-test-cleannamespaces

Homepage:
Spack package:
Versions:
0.22
Build Dependencies:
perl, perl-sub-exporter, perl-module-runtime, perl-test-needs, perl-test-deep, perl-test-warnings, perl-file-pushd, perl-package-stash, perl-sub-identify, perl-namespace-clean
Run Dependencies:
perl, perl-sub-exporter, perl-module-runtime, perl-test-needs, perl-test-deep, perl-test-warnings, perl-file-pushd, perl-package-stash, perl-sub-identify, perl-namespace-clean
Description:
This module lets you check your module's namespaces for imported functions you might have forgotten to remove

perl-test-deep

Homepage:
Spack package:
Versions:
1.127
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Extremely flexible deep comparison

perl-test-differences

Homepage:
Spack package:
Versions:
0.64
Build Dependencies:
perl, perl-module-build, perl-capture-tiny, perl-text-diff
Run Dependencies:
perl, perl-capture-tiny, perl-text-diff
Description:
Test strings and data structures and show differences if not ok

perl-test-exception

Homepage:
Spack package:
Versions:
0.43
Build Dependencies:
perl, perl-sub-uplevel
Run Dependencies:
perl, perl-sub-uplevel
Description:
Test exception-based code

perl-test-fatal

Homepage:
Spack package:
Versions:
0.014
Build Dependencies:
perl, perl-try-tiny
Run Dependencies:
perl, perl-try-tiny
Description:
Incredibly simple helpers for testing code with exceptions

perl-test-memory-cycle

Homepage:
Spack package:
Versions:
1.06
Build Dependencies:
perl, perl-padwalker, perl-devel-cycle
Run Dependencies:
perl, perl-padwalker, perl-devel-cycle
Description:
Check for memory leaks and circular memory references

perl-test-more

Homepage:
Spack package:
Versions:
1.302183, 1.302182, 1.302181, 1.302180
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Test2 is a new testing framework produced by forking Test::Builder, completely refactoring it, adding many new features and capabilities.

perl-test-most

Homepage:
Spack package:
Versions:
0.35
Build Dependencies:
perl, perl-exception-class, perl-test-differences, perl-test-exception, perl-test-warn, perl-test-deep
Run Dependencies:
perl, perl-exception-class, perl-test-differences, perl-test-exception, perl-test-warn, perl-test-deep
Description:
Most commonly needed test functions and features.

perl-test-needs

Homepage:
Spack package:
Versions:
0.002005
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Skip tests when modules not available.

perl-test-output

Homepage:
Spack package:
Versions:
1.033, 1.032, 1.031, 1.03, 1.02_01, 1.02
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Test::Output - Utilities to test STDOUT and STDERR messages.

perl-test-requires

Homepage:
Spack package:
Versions:
0.10
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Checks to see if the module can be loaded.

perl-test-requiresinternet

Homepage:
Spack package:
Versions:
0.05
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Easily test network connectivity

perl-test-warn

Homepage:
Spack package:
Versions:
0.30
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl extension to test methods for warnings

perl-test-warnings

Homepage:
Spack package:
Versions:
0.026
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Test for warnings and the lack of them

perl-text-csv

Homepage:
Spack package:
Versions:
1.95
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Comma-separated values manipulator (using XS or PurePerl)

perl-text-diff

Homepage:
Spack package:
Versions:
1.45
Build Dependencies:
perl, perl-algorithm-diff
Run Dependencies:
perl, perl-algorithm-diff
Description:
Provides a basic set of services akin to the GNU diff utility.

perl-text-format

Homepage:
Spack package:
Versions:
0.61
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
Text::Format - Various subroutines to format text

perl-text-simpletable

Homepage:
Spack package:
Versions:
2.04
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Simple Eyecandy ASCII Tables

perl-text-soundex

Homepage:
Spack package:
Versions:
3.05
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Soundex is a phonetic algorithm for indexing names by sound, as pronounced in English. The goal is for names with the same pronunciation to be encoded to the same representation so that they can be matched despite minor differences in spelling

perl-text-unidecode

Homepage:
Spack package:
Versions:
1.30
Build Dependencies:
perl
Run Dependencies:
perl
Description:
plain ASCII transliterations of Unicode text

perl-thread-queue

Homepage:
Spack package:
Versions:
3.13
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Thread::Queue - Thread-safe queues. This module provides thread-safe FIFO queues that can be accessed safely by any number of threads.

perl-threads

Homepage:
Spack package:
Versions:
2.21
Build Dependencies:
perl
Run Dependencies:
perl
Description:
threads - Perl interpreter-based threads

perl-time-hires

Homepage:
Spack package:
Versions:
1.9746
Build Dependencies:
perl
Run Dependencies:
perl
Description:
High resolution alarm, sleep, gettimeofday, interval timers

perl-time-piece

Homepage:
Spack package:
Versions:
1.3203
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Object Oriented time objects

perl-timedate

Homepage:
Spack package:
Versions:
2.30
Build Dependencies:
perl
Run Dependencies:
perl
Description:
The parser contained here will only parse absolute dates, if you want a date parser that can parse relative dates then take a look at the Time modules by David Muir on CPAN.

perl-tk

Homepage:
Spack package:
Versions:
804.035, 804.033
Build Dependencies:
perl, perl-extutils-makemaker, libx11, libxcb, libxft, jpeg, libpng, freetype
Link Dependencies:
libx11, libxcb, libxft, jpeg, libpng, freetype
Run Dependencies:
perl
Description:
Interface to Tk Graphics Library

perl-try-tiny

Homepage:
Spack package:
Versions:
0.28
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Minimal try/catch with proper preservation of $@

perl-uri

Homepage:
Spack package:
Versions:
1.72, 1.71
Build Dependencies:
perl, perl-test-needs
Run Dependencies:
perl
Test Dependencies:
perl-test-needs
Description:
Uniform Resource Identifiers (absolute and relative)

perl-uri-encode

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
perl, perl-module-build
Run Dependencies:
perl
Description:
This modules provides simple URI (Percent) encoding/decoding

perl-want

Homepage:
Spack package:
Versions:
0.29
Build Dependencies:
perl
Run Dependencies:
perl
Description:
A generalisation of wantarray.

perl-www-robotrules

Homepage:
Spack package:
Versions:
6.02
Build Dependencies:
perl, perl-uri
Run Dependencies:
perl, perl-uri
Description:
Database of robots.txt-derived permissions

perl-xml-dom

Homepage:
Spack package:
Versions:
1.46
Build Dependencies:
perl, perl-xml-parser, perl-xml-regexp, perl-libwww-perl, perl-libxml-perl
Run Dependencies:
perl, perl-xml-parser, perl-xml-regexp, perl-libwww-perl, perl-libxml-perl
Description:
This module extends the XML::Parser module by Clark Cooper. The XML::Parser module is built on top of XML::Parser::Expat, which is a lower level interface to James Clark's expat library.

perl-xml-dom-xpath

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl, perl-xml-dom, perl-xml-xpathengine
Run Dependencies:
perl, perl-xml-dom, perl-xml-xpathengine
Description:
XML::DOM::XPath allows you to use XML::XPath methods to query a DOM. This is often much easier than relying only on getElementsByTagName.

perl-xml-filter-buffertext

Homepage:
Spack package:
Versions:
1.01
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This is a very simple filter. One common cause of grief (and programmer error) is that XML parsers aren't required to provide character events in one chunk. They can, but are not forced to, and most don't. This filter does the trivial but oft-repeated task of putting all characters into a single event.

perl-xml-libxml

Homepage:
Spack package:
Versions:
2.0201
Build Dependencies:
perl, libxml2, perl-xml-namespacesupport, perl-xml-sax, perl-xml-sax-base, perl-alien-libxml2
Link Dependencies:
libxml2
Run Dependencies:
perl, perl-xml-namespacesupport, perl-xml-sax, perl-xml-sax-base
Description:
This module is an interface to libxml2, providing XML and HTML parsers with DOM, SAX and XMLReader interfaces, a large subset of DOM Layer 3 interface and a XML::XPath-like interface to XPath API of libxml2. The module is split into several packages which are not described in this section; unless stated otherwise, you only need to use XML::LibXML; in your programs.

perl-xml-libxslt

Homepage:
Spack package:
Versions:
1.96
Build Dependencies:
perl, libxslt, perl-xml-libxml
Link Dependencies:
libxslt, perl-xml-libxml
Run Dependencies:
perl
Description:
Interface to the GNOME libxslt library.

perl-xml-namespacesupport

Homepage:
Spack package:
Versions:
1.12_9
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module offers a simple to process namespaced XML names (unames) from within any application that may need them. It also helps maintain a prefix to namespace URI map, and provides a number of basic checks.

perl-xml-parser

Homepage:
Spack package:
Versions:
2.44
Build Dependencies:
perl, expat, perl-libwww-perl
Link Dependencies:
expat
Run Dependencies:
perl, perl-libwww-perl
Description:
XML::Parser - A perl module for parsing XML documents

perl-xml-parser-lite

Homepage:
Spack package:
Versions:
0.721
Build Dependencies:
perl, perl-test-requires
Run Dependencies:
perl, perl-test-requires
Description:
Lightweight pure-perl XML Parser (based on regexps)

perl-xml-quote

Homepage:
Spack package:
Versions:
1.02
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module provides functions to quote/dequote strings in "xml"-way. All functions are written in XS and are very fast; they correctly process utf8, tied, overloaded variables and all the rest of perl "magic".

perl-xml-regexp

Homepage:
Spack package:
Versions:
0.04
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This package contains regular expressions for the following XML tokens: BaseChar, Ideographic, Letter, Digit, Extender, CombiningChar, NameChar, EntityRef, CharRef, Reference, Name, NmToken, and AttValue.

perl-xml-sax

Homepage:
Spack package:
Versions:
1.02
Build Dependencies:
perl, perl-xml-namespacesupport, perl-xml-sax-base
Run Dependencies:
perl, perl-xml-namespacesupport, perl-xml-sax-base
Description:
XML::SAX is a SAX parser access API for Perl. It includes classes and APIs required for implementing SAX drivers, along with a factory class for returning any SAX parser installed on the user's system.

perl-xml-sax-base

Homepage:
Spack package:
Versions:
1.09
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module has a very simple task - to be a base class for PerlSAX drivers and filters. It's default behaviour is to pass the input directly to the output unchanged. It can be useful to use this module as a base class so you don't have to, for example, implement the characters() callback.

perl-xml-sax-writer

Homepage:
Spack package:
Versions:
0.57
Build Dependencies:
perl, perl-xml-filter-buffertext, perl-xml-namespacesupport, perl-xml-sax-base
Run Dependencies:
perl, perl-xml-filter-buffertext, perl-xml-namespacesupport, perl-xml-sax-base
Description:
A new XML Writer was needed to match the SAX2 effort because quite naturally no existing writer understood SAX2. My first intention had been to start patching XML::Handler::YAWriter as it had previously been my favourite writer in the SAX1 world.

perl-xml-simple

Homepage:
Spack package:
Versions:
2.24
Build Dependencies:
perl, perl-xml-parser
Run Dependencies:
perl, perl-xml-parser
Description:
An API for simple XML files

perl-xml-twig

Homepage:
Spack package:
Versions:
3.52
Build Dependencies:
perl, perl-xml-parser
Run Dependencies:
perl, perl-xml-parser
Description:
This module provides a way to process XML documents. It is build on top of XML::Parser. The module offers a tree interface to the document, while allowing you to output the parts of it that have been completely processed. It allows minimal resource (CPU and memory) usage by building the tree only for the parts of the documents that need actual processing, through the use of the twig_roots and twig_print_outside_roots options. The finish and finish_print methods also help to increase performances. XML::Twig tries to make simple things easy so it tries its best to takes care of a lot of the (usually) annoying (but sometimes necessary) features that come with XML and XML::Parser.

perl-xml-writer

Homepage:
Spack package:
Versions:
0.625
Build Dependencies:
perl
Run Dependencies:
perl
Description:
XML::Writer is a helper module for Perl programs that write an XML document. The module handles all escaping for attribute values and character data and constructs different types of markup, such as tags, comments, and processing instructions. By default, the module performs several well-formedness checks to catch errors during output. This behaviour can be extremely useful during development and debugging, but it can be turned off for production-grade code. The module can operate either in regular mode in or Namespace processing mode. In Namespace mode, the module will generate Namespace Declarations itself, and will perform additional checks on the output.

perl-xml-xpathengine

Homepage:
Spack package:
Versions:
0.14
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module provides an XPath engine, that can be re-used by other module/classes that implement trees.

perl-yaml

Homepage:
Spack package:
Versions:
1.27
Build Dependencies:
perl
Run Dependencies:
perl
Description:
This module has been released to CPAN as YAML::Old, and soon YAML.pm will be changed to just be a frontend interface module for all the various Perl YAML implementation modules, including YAML::Old

perl-yaml-libyaml

Homepage:
Spack package:
Versions:
0.67
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl YAML Serialization using XS and libyaml

pestpp

Homepage:
Spack package:
Versions:
5.0.5
Build Dependencies:
cmake, mpi
Run Dependencies:
mpi
Description:
PEST++ is a software suite aimed at supporting complex numerical models in the decision-support context. Much focus has been devoted to supporting environmental models (groundwater, surface water, etc) but these tools are readily applicable to any computer model.

petaca

Homepage:
Spack package:
Versions:
develop, 22.03, 21.03
Build Dependencies:
cmake, yajl
Link Dependencies:
yajl
Description:
A collection of modern Fortran modules. Modules include: - Parameter lists - map_any_type - fortran_dynamic_loader - timer_tree_type - yajl_fort - json

petsc

Homepage:
Spack package:
Versions:
main, 3.17.1, 3.17.0, 3.16.6, 3.16.5, 3.16.4, 3.16.3, 3.16.2, 3.16.1, 3.16.0, 3.15.5, 3.15.4, 3.15.3, 3.15.2, 3.15.1, 3.15.0, 3.14.6, 3.14.5, 3.14.4, 3.14.3, 3.14.2, 3.14.1, 3.14.0, 3.13.6, 3.13.5, 3.13.4, 3.13.3, 3.13.2, 3.13.1, 3.13.0, 3.12.5, 3.12.4, 3.12.3, 3.12.2, 3.12.1, 3.12.0, 3.11.4, 3.11.3, 3.11.2, 3.11.1, 3.11.0, 3.10.5, 3.10.4, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.9.4, 3.9.3, 3.9.2, 3.9.1, 3.9.0, 3.8.4, 3.8.3, 3.8.2, 3.8.1, 3.8.0, 3.7.7, 3.7.6, 3.7.5, 3.7.4, 3.7.2, 3.6.4, 3.6.3, 3.5.3, 3.5.2, 3.5.1, 3.4.4
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, diffutils, sowing, blas, lapack, mpi, hipblas, hipsparse, rocsparse, rocsolver, rocblas, rocrand, rocthrust, rocprim, python, metis, scotch, hdf5, zlib, parmetis, valgrind, mmg, parmmg, tetgen, hypre, superlu-dist, strumpack, scalapack, mumps, trilinos, mkl, fftw, suite-sparse, libx11, mpfr, gmp, jpeg, libpng, giflib, exodusii, netcdf-c, parallel-netcdf, random123, moab, cgns, memkind, p4est, saws, libyaml, hwloc, kokkos, kokkos-kernels
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, sowing, blas, lapack, mpi, hipblas, hipsparse, rocsparse, rocsolver, rocblas, rocrand, rocthrust, rocprim, metis, scotch, hdf5, zlib, parmetis, valgrind, mmg, parmmg, tetgen, hypre, superlu-dist, strumpack, scalapack, mumps, trilinos, mkl, fftw, suite-sparse, libx11, mpfr, gmp, jpeg, libpng, giflib, exodusii, netcdf-c, parallel-netcdf, random123, moab, cgns, memkind, p4est, saws, libyaml, hwloc, kokkos, kokkos-kernels
Description:
PETSc is a suite of data structures and routines for the scalable (parallel) solution of scientific applications modeled by partial differential equations.

pexsi

Homepage:
Spack package:
Versions:
0.10.2, 0.9.0
Build Dependencies:
parmetis, superlu-dist
Link Dependencies:
parmetis, superlu-dist
Description:
The PEXSI library is written in C++, and uses message passing interface (MPI) to parallelize the computation on distributed memory computing systems and achieve scalability on more than 10,000 processors. The Pole EXpansion and Selected Inversion (PEXSI) method is a fast method for electronic structure calculation based on Kohn-Sham density functional theory. It efficiently evaluates certain selected elements of matrix functions, e.g., the Fermi-Dirac function of the KS Hamiltonian, which yields a density matrix. It can be used as an alternative to diagonalization methods for obtaining the density, energy and forces in electronic structure calculations.

pfapack

Homepage:
Spack package:
Versions:
2014-09-17
Build Dependencies:
lapack, blas, python, py-numpy, py-scipy
Link Dependencies:
lapack, blas
Run Dependencies:
python, py-numpy, py-scipy
Description:
A library for numerically computing the Pfaffian of a real or complex skew-symmetric matrix. This is based on computing the tridiagonal form of the matrix under unitary congruence transformations.

pfft

Homepage:
Spack package:
Versions:
1.0.8-alpha
Build Dependencies:
gnuconfig, fftw, mpi
Link Dependencies:
fftw, mpi
Description:
PFFT is a software library for computing massively parallel, fast Fourier transformations on distributed memory architectures. PFFT can be understood as a generalization of FFTW-MPI to multidimensional data decomposition.

pflask

Homepage:
Spack package:
Versions:
0.2, 0.1
Build Dependencies:
cmake
Description:
Pflask is a simple tool for creating process containers on LInux.

pflotran

Homepage:
Spack package:
Versions:
develop, 3.0.2, xsdk-0.6.0, xsdk-0.5.0, xsdk-0.4.0, xsdk-0.3.0
Build Dependencies:
gnuconfig, mpi, hdf5, petsc
Link Dependencies:
mpi, hdf5, petsc
Description:
PFLOTRAN is an open source, state-of-the-art massively parallel subsurface flow and reactive transport code.

pfunit

Homepage:
Spack package:
Versions:
4.1.14, 4.1.13, 4.1.12, 4.1.11, 4.1.10, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.10, 3.2.9
Build Dependencies:
cmake, python, mpi, m4
Link Dependencies:
mpi
Run Dependencies:
python
Description:
pFUnit is a unit testing framework enabling JUnit-like testing of serial and MPI-parallel software written in Fortran.

pgdspider

Homepage:
Spack package:
Versions:
2.1.1.2
Build Dependencies:
java, bcftools, bwa, samtools
Link Dependencies:
bcftools, bwa, samtools
Run Dependencies:
java
Description:
"PGDSpider is a powerful automated data conversion tool for population genetic and genomics programs

pgi

Homepage:
Spack package:
Versions:
20.4, 19.10, 19.7, 19.4, 19.1, 18.10, 18.4, 17.10, 17.4
Description:
PGI optimizing multi-core x64 compilers for Linux, MacOS & Windows with support for debugging and profiling of local MPI processes. Note: The PGI compilers are licensed software. You will need to create an account on the PGI homepage and download PGI yourself. Spack will search your current directory for the download tarball. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

pgplot

Homepage:
Spack package:
Versions:
5.2.2
Build Dependencies:
libx11, libpng
Link Dependencies:
libx11, libpng
Description:
PGPLOT Graphics Subroutine Library. The PGPLOT Graphics Subroutine Library is a Fortran- or C-callable, device-independent graphics package for making simple scientific graphs. It is intended for making graphical images of publication quality with minimum effort on the part of the user. For most applications, the program can be device-independent, and the output can be directed to the appropriate device at run time.

phantompeakqualtools

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
r, awk, samtools, r-phantompeakqualtools
Link Dependencies:
awk, samtools
Run Dependencies:
r, r-phantompeakqualtools
Description:
This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data.

phast

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
clapack
Link Dependencies:
clapack
Description:
PHAST is a freely available software package for comparative and evolutionary genomics.

phasta

Homepage:
Spack package:
Versions:
develop, 0.0.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
SCOREC RPI's Parallel Hierarchic Adaptive Stabilized Transient Analysis (PHASTA) of compressible and incompressible Navier Stokes equations.

phist

Homepage:
Spack package:
Versions:
develop, master, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.0, 1.7.5, 1.7.4, 1.7.3, 1.7.2, 1.6.1, 1.6.0, 1.4.3
Build Dependencies:
cmake, blas, lapack, python, mpi, trilinos, petsc, eigen, ghost, parmetis
Link Dependencies:
blas, lapack, mpi, trilinos, petsc, eigen, ghost, parmetis
Test Dependencies:
py-pytest, py-numpy, pkgconfig
Description:
The Pipelined, Hybrid-parallel Iterative Solver Toolkit provides implementations of and interfaces to block iterative solvers for sparse linear and eigenvalue problems. In contrast to other libraries we support multiple backends (e.g. Trilinos, PETSc and our own optimized kernels), and interfaces in multiple languages such as C, C++, Fortran 2003 and Python. PHIST has a clear focus on portability and hardware performance: in particular support row-major storage of block vectors and using GPUs (via the ghost library or Trilinos/Tpetra).

phoenix

Homepage:
Spack package:
Versions:
master
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Phoenix is a SQL skin over HBase delivered as a client-embedded JDBC driver targeting low latency queries over HBase data.

photos

Homepage:
Spack package:
Versions:
3.64, 3.61
Build Dependencies:
gnuconfig, hepmc, hepmc3
Link Dependencies:
hepmc, hepmc3
Description:
Photos is a Monte Carlo program for bremsstrahlung in the decay of particles and resonances.

photos-f

Homepage:
Spack package:
Versions:
215.5
Description:
PHOTOS Monte-Carlo generator (Fortran version)

php

Homepage:
Spack package:
Versions:
7.4.1, 7.4.0, 7.3.13, 7.3.12, 7.3.11, 7.2.26, 7.2.25, 7.2.24, 7.1.33
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, bison, re2c, libxml2, sqlite
Link Dependencies:
libxml2, sqlite
Description:
PHP is a popular general-purpose scripting language that is especially suited to web development. Fast, flexible and pragmatic, PHP powers everything from your blog to the most popular websites in the world.

phrap-crossmatch-swat

Homepage:
Spack package:
Versions:
1.090518
Description:
phrap is a program for assembling shotgun DNA sequence data. cross_match is a general purpose utility for comparing any two DNA sequence sets using a 'banded' version of swat. swat is a program for searching one or more DNA or protein query sequences, or a query profile, against a sequence database

phred

Homepage:
Spack package:
Versions:
071220
Description:
The phred software reads DNA sequencing trace files, calls bases, and assigns a quality value to each called base.

phylip

Homepage:
Spack package:
Versions:
3.697
Description:
PHYLIP (the PHYLogeny Inference Package) is a package of programs for inferring phylogenies (evolutionary trees).

phylobayesmpi

Homepage:
Spack package:
Versions:
1.8b
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Phylobayes MPI version

phyluce

Homepage:
Spack package:
Versions:
1.6.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, py-biopython, abyss, bcftools, bwa, gatk, gblocks, lastz, mafft, muscle, picard, raxml, samtools, seqtk, spades, trimal, trinity, velvet
Description:
phyluce (phy-loo-chee) is a software package that was initially developed for analyzing data collected from ultraconserved elements in organismal genomes

picard

Homepage:
Spack package:
Versions:
2.26.2, 2.25.7, 2.25.6, 2.25.5, 2.25.4, 2.25.3, 2.25.2, 2.25.1, 2.25.0, 2.24.0, 2.20.8, 2.19.0, 2.18.3, 2.18.0, 2.17.0, 2.16.0, 2.15.0, 2.13.2, 2.10.0, 2.9.4, 2.9.3, 2.9.2, 2.9.0, 2.8.3, 2.6.0, 1.140
Run Dependencies:
java
Description:
Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

picsar

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi, fftw
Link Dependencies:
mpi, fftw
Description:
PICSAR is a high performance library of optimized versions of the key functionalities of the PIC loop.

picsarlite

Homepage:
Spack package:
Versions:
develop, 0.1
Build Dependencies:
mpi, fftw
Link Dependencies:
mpi, fftw
Description:
PICSARlite is a self-contained proxy that adequately portrays the computational loads and dataflow of more complex PIC codes.

pidx

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
PIDX Parallel I/O Library. PIDX is an efficient parallel I/O library that reads and writes multiresolution IDX data files.

pig

Homepage:
Spack package:
Versions:
0.7.0
Description:
Pig is a dataflow programming environment for processing very large files. Pig's language is called Pig Latin. A Pig Latin program consists of a directed acyclic graph where each node represents an operation that transforms data.

pigz

Homepage:
Spack package:
Versions:
2.7, 2.6, 2.4, 2.3.4
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
A parallel implementation of gzip for modern multi-processor, multi-core machines.

pika

Homepage:
Spack package:
Versions:
main, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, git, ninja, hwloc, boost, gperftools, jemalloc, mimalloc, tbb, mpi, apex, hipblas
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hwloc, boost, gperftools, jemalloc, mimalloc, tbb, mpi, apex, hipblas
Description:
C++ runtime system for parallellism and concurrency.

pilon

Homepage:
Spack package:
Versions:
1.22, 1.13
Run Dependencies:
java
Description:
Pilon is an automated genome assembly improvement and variant detection tool.

pindel

Homepage:
Spack package:
Versions:
0.2.5b8, 0.2.5b6, 0.2.5b5, 0.2.5b4, 0.2.5b1, 0.2.5a7, 0.2.5
Build Dependencies:
htslib
Link Dependencies:
htslib
Description:
Pindel can detect breakpoints from next-gen sequence data.

pinentry

Homepage:
Spack package:
Versions:
1.2.0, 1.1.1, 1.1.0
Build Dependencies:
gnuconfig, libgpg-error, libassuan, ncurses, emacs, gtkplus, qt, fltk
Link Dependencies:
libgpg-error, libassuan, ncurses, emacs, gtkplus, qt, fltk
Description:
pinentry is a small collection of dialog programs that allow GnuPG to read passphrases and PIN numbers in a secure manner. There are versions for the common GTK and Qt toolkits as well as for the text terminal (Curses).

pinfo

Homepage:
Spack package:
Versions:
0.6.13, 0.6.12, 0.6.11
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, texinfo
Description:
Pinfo is user-friendly, console-based viewer for Info documents.

pipework

Homepage:
Spack package:
Versions:
master
Description:
Pipework lets you connect together containers in arbitrarily complex scenarios.

piranha

Homepage:
Spack package:
Versions:
develop, 0.5
Build Dependencies:
cmake, python, boost, bzip2, gmp, mpfr
Link Dependencies:
boost, bzip2, gmp, mpfr
Run Dependencies:
python
Description:
Piranha is a computer-algebra library for the symbolic manipulation of sparse multivariate polynomials and other closely-related symbolic objects (such as Poisson series).

pism

Homepage:
Spack package:
Versions:
develop, 1.1.4, 0.7.x, icebin
Build Dependencies:
cmake, fftw, gsl, mpi, netcdf-c, petsc, udunits, proj, everytrace, python, py-matplotlib, py-numpy
Link Dependencies:
fftw, gsl, mpi, netcdf-c, petsc, udunits, proj, everytrace, python, py-matplotlib, py-numpy
Run Dependencies:
python
Description:
Parallel Ice Sheet Model

pixman

Homepage:
Spack package:
Versions:
0.40.0, 0.38.4, 0.38.0, 0.34.0, 0.32.6
Build Dependencies:
gnuconfig, pkgconfig, libpng
Link Dependencies:
libpng
Description:
The Pixman package contains a library that provides low-level pixel manipulation features such as image compositing and trapezoid rasterization.

pixz

Homepage:
Spack package:
Versions:
1.0.7, 1.0.6
Build Dependencies:
gnuconfig, xz, libarchive
Link Dependencies:
xz, libarchive
Description:
Pixz (pronounced pixie) is a parallel, indexing version of xz.

pkg-config

Homepage:
Spack package:
Versions:
0.29.2, 0.29.1, 0.28
Build Dependencies:
gnuconfig
Description:
pkg-config is a helper tool used when compiling applications and libraries

pkgconf

Homepage:
Spack package:
Versions:
1.8.0, 1.7.4, 1.7.3, 1.6.3, 1.6.1, 1.6.0, 1.5.4, 1.4.2, 1.4.0, 1.3.10, 1.3.8
Build Dependencies:
gnuconfig
Description:
pkgconf is a program which helps to configure compiler and linker flags for development frameworks. It is similar to pkg-config from freedesktop.org, providing additional functionality while also maintaining compatibility.

pktools

Homepage:
Spack package:
Versions:
2.6.7.1, 2.6.7
Build Dependencies:
cmake, gdal, gsl, armadillo, nlopt, boost, fann, liblas
Link Dependencies:
gdal, gsl, armadillo, nlopt, boost, fann, liblas
Description:
Processing Kernel for geospatial data

planck-likelihood

Homepage:
Spack package:
Versions:
2.00
Build Dependencies:
blas, cfitsio, lapack
Link Dependencies:
blas, cfitsio, lapack
Description:
2015 Cosmic Microwave Background (CMB) spectra and likelihood code

plasma

Homepage:
Spack package:
Versions:
develop, 21.8.29, 20.9.20, 19.8.1, 19.8.0, 18.11.1, 18.11.0, 18.10.0, 18.9.0, 17.1
Build Dependencies:
cmake, lua, blas, lapack
Link Dependencies:
lua, blas, lapack
Description:
Parallel Linear Algebra Software for Multicore Architectures, PLASMA is a software package for solving problems in dense linear algebra using multicore processors and Xeon Phi coprocessors. PLASMA provides implementations of state-of-the-art algorithms using cutting-edge task scheduling techniques. PLASMA currently offers a collection of routines for solving linear systems of equations, least squares problems, eigenvalue problems, and singular value problems.

platypus

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-cython, htslib
Link Dependencies:
htslib
Run Dependencies:
python
Description:
A Haplotype-Based Variant Caller For Next Generation Sequence Data

plplot

Homepage:
Spack package:
Versions:
5.15.0, 5.14.0, 5.13.0, 5.12.0, 5.11.0
Build Dependencies:
cmake, java, lua, pango, py-numpy, python, qt, tcl, wxwidgets, freetype, gtkplus, libx11, qhull, swig
Link Dependencies:
java, lua, pango, qt, tcl, wxwidgets, libsm, freetype, gtkplus, libx11, qhull, swig
Run Dependencies:
py-numpy, python
Description:
PLplot is a cross-platform package for creating scientific plots.

plumed

Homepage:
Spack package:
Versions:
master, 2.8.0, 2.7.4, 2.7.3, 2.7.2, 2.7.1, 2.7.0, 2.6.6, 2.6.5, 2.6.4, 2.6.3, 2.6.2, 2.6.1, 2.6.0, 2.5.7, 2.5.6, 2.5.5, 2.5.4, 2.5.3, 2.5.2, 2.5.1, 2.5.0, 2.4.6, 2.4.4, 2.4.2, 2.4.1, 2.3.5, 2.3.3, 2.3.0, 2.2.4, 2.2.3
Build Dependencies:
gnuconfig, zlib, blas, lapack, libmatheval, arrayfire, mpi, gsl, autoconf, automake, libtool, m4, py-cython
Link Dependencies:
zlib, blas, lapack, libmatheval, arrayfire, mpi, gsl
Description:
PLUMED is an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics engines. Free energy calculations can be performed as a function of many order parameters with a particular focus on biological problems, using state of the art methods such as metadynamics, umbrella sampling and Jarzynski-equation based steered MD. The software, written in C++, can be easily interfaced with both fortran and C/C++ codes.

ply

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
A light-weight dynamic tracer for Linux that leverages the kernel's BPF VM in concert with kprobes and tracepoints to attach probes to arbitrary points in the kernel.

pmdk

Homepage:
Spack package:
Versions:
master, 1.11.0, 1.10, 1.9.2, 1.9.1, 1.9, 1.8.1, 1.8, 1.7.1, 1.7, 1.6, 1.5
Build Dependencies:
ncurses, libfabric
Link Dependencies:
ncurses, libfabric
Description:
The Persistent Memory Development Kit (PMDK), formerly known as NVML, is a library for using memory-mapped persistence, optimized specifically for persistent memory

pmemkv

Homepage:
Spack package:
Versions:
master, 1.4, 1.3, 1.2, 1.1, 1.0.3, 1.0.2
Build Dependencies:
cmake, libpmemobj-cpp, pmdk, memkind, rapidjson, tbb
Link Dependencies:
cmake, libpmemobj-cpp, pmdk, memkind, rapidjson, tbb
Description:
pmemkv is a local/embedded key-value datastore, optimized for persistent memory.

pmerge

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, automake, autoconf, m4, perl
Description:
PMERGE implements a new method that identifies candidate PSVs by building networks of loci that share high levels of nucleotide similarity. The PMERGE is embedded in the analysis pipeline of the widely used Stacks software, and it is straightforward to apply it as an additional filter in population-genomic studies using RAD-seq data.

pmgr-collective

Homepage:
Spack package:
Versions:
1.0
Description:
PMGR_COLLECTIVE provides a scalable network for bootstrapping MPI jobs.

pmix

Homepage:
Spack package:
Versions:
master, 4.1.2, 4.1.1, 4.1.0, 3.2.3, 3.2.2, 3.2.1, 3.1.6, 3.1.5, 3.1.3, 3.1.2, 3.0.2, 3.0.1, 3.0.0, 2.2.3, 2.2.2, 2.1.4, 2.1.3, 2.1.2, 2.0.1, 1.2.5
Build Dependencies:
gnuconfig, libevent, hwloc, m4, autoconf, automake, libtool, perl, curl, jansson, pandoc
Link Dependencies:
libevent, hwloc, curl, jansson
Description:
The Process Management Interface (PMI) has been used for quite some time as a means of exchanging wireup information needed for interprocess communication. However, meeting the significant orchestration challenges presented by exascale systems requires that the process-to-system interface evolve to permit a tighter integration between the different components of the parallel application and existing and future SMS solutions. PMI Exascale (PMIx) addresses these needs by providing an extended version of the PMI definitions specifically designed to support exascale and beyond environments by: (a) adding flexibility to the functionality expressed in the existing APIs, (b) augmenting the interfaces with new APIs that provide extended capabilities, (c) forging a collaboration between subsystem providers including resource manager, fabric, file system, and programming library developers, (d) establishing a standards-like body for maintaining the definitions, and (e) providing a reference implementation of the PMIx standard that demonstrates the desired level of scalability while maintaining strict separation between it and the standard itself.

pmlib

Homepage:
Spack package:
Versions:
master, 6.4.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
This library records the statistics information of run-time performance and the trace information of a user code and reports its summary. The PMlib is able to use for both serial and parallel environments including hybrid(OpenMP & MPI) code. In addition, PAPI interface allows us to access the information of build-in hardware counter.

pnfft

Homepage:
Spack package:
Versions:
1.0.7-alpha
Build Dependencies:
gnuconfig, pfft, gsl
Link Dependencies:
pfft, gsl
Description:
PNFFT is a parallel software library for the calculation of three- dimensional nonequispaced FFTs.

pngquant

Homepage:
Spack package:
Versions:
2.12.5
Build Dependencies:
gnuconfig, libpng
Link Dependencies:
libpng
Description:
pngquant is a command-line utility and a library for lossy compression of PNG images.

pngwriter

Homepage:
Spack package:
Versions:
develop, master, 0.7.0, 0.6.0, 0.5.6
Build Dependencies:
cmake, libpng, zlib, freetype
Link Dependencies:
libpng, zlib, freetype
Description:
PNGwriter is a very easy to use open source graphics library that uses PNG as its output format. The interface has been designed to be as simple and intuitive as possible. It supports plotting and reading pixels in the RGB (red, green, blue), HSV (hue, saturation, value/brightness) and CMYK (cyan, magenta, yellow, black) colour spaces, basic shapes, scaling, bilinear interpolation, full TrueType antialiased and rotated text support, bezier curves, opening existing PNG images and more.

pnmpi

Homepage:
Spack package:
Versions:
1.7
Build Dependencies:
cmake, argp-standalone, binutils, help2man, doxygen, mpi
Link Dependencies:
argp-standalone, binutils, help2man, doxygen, mpi
Description:
PnMPI is a dynamic MPI tool infrastructure that builds on top of the standardized PMPI interface.

poamsa

Homepage:
Spack package:
Versions:
2.0
Description:
POA is Partial Order Alignment, a fast program for multiple sequence alignment in bioinformatics. Its advantages are speed, scalability, sensitivity, and the superior ability to handle branching / indels in the alignment.

pocl

Homepage:
Spack package:
Versions:
master, 1.6, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0, 0.14, 0.13, 0.12, 0.11, 0.10
Build Dependencies:
cmake, hwloc, libtool, pkgconfig, llvm, ocl-icd
Link Dependencies:
hwloc, libtool, llvm, ocl-icd
Run Dependencies:
libtool
Description:
Portable Computing Language (pocl) is an open source implementation of the OpenCL standard which can be easily adapted for new targets and devices, both for homogeneous CPU and heterogeneous GPUs/accelerators.

podio

Homepage:
Spack package:
Versions:
master, 0.14.1, 0.14, 0.13.2, 0.13.1, 0.13, 0.12, 0.11, 0.10, 0.9.2, 0.9, 0.8
Build Dependencies:
cmake, root, python, py-pyyaml, py-jinja2, sio
Link Dependencies:
root, sio
Run Dependencies:
python, py-pyyaml, py-jinja2
Test Dependencies:
catch2
Description:
PODIO, or plain-old-data I/O, is a C++ library to support the creation and handling of data models in particle physics.

podman

Homepage:
Spack package:
Versions:
3.4.2
Build Dependencies:
go, go-md2man, pkgconfig, gpgme, libassuan, libgpg-error, libseccomp
Link Dependencies:
gpgme, libassuan, libgpg-error, libseccomp
Run Dependencies:
cni-plugins, conmon, runc, slirp4netns
Description:
An optionally rootless and daemonless container engine: alias docker=podman

poke

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, pkgconfig, readline, bdw-gc, json-c
Link Dependencies:
pkgconfig, readline, bdw-gc, json-c
Description:
"The extensible editor for structured binary data

polymake

Homepage:
Spack package:
Versions:
3.5, 3.0r2, 3.0r1
Build Dependencies:
bliss, boost, cddlib, gmp, lrslib, mpfr, ninja, perl, perl-json, perl-termreadkey, perl-term-readline-gnu, perl-xml-libxml, perl-xml-libxslt, perl-xml-writer, ppl, readline
Link Dependencies:
bliss, boost, cddlib, gmp, lrslib, mpfr, perl, perl-json, perl-termreadkey, perl-term-readline-gnu, perl-xml-libxml, perl-xml-libxslt, perl-xml-writer, ppl, readline
Description:
polymake is open source software for research in polyhedral geometry

poplddecay

Homepage:
Spack package:
Versions:
3.41, 3.40
Description:
PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format files

poppler

Homepage:
Spack package:
Versions:
master, 21.09.0, 21.07.0, 0.90.1, 0.87.0, 0.79.0, 0.77.0, 0.72.0, 0.65.0, 0.64.0, 0.61.1
Build Dependencies:
cmake, pkgconfig, poppler-data, fontconfig, freetype, boost, lcms, glib, gobject-introspection, curl, openjpeg, qt, zlib, cairo, iconv, jpeg, libpng, libtiff
Link Dependencies:
fontconfig, freetype, boost, lcms, glib, gobject-introspection, curl, openjpeg, qt, zlib, cairo, iconv, jpeg, libpng, libtiff
Run Dependencies:
poppler-data
Description:
Poppler is a PDF rendering library based on the xpdf-3.0 code base.

poppler-data

Homepage:
Spack package:
Versions:
0.4.9
Build Dependencies:
cmake
Description:
This package consists of encoding files for use with poppler. The encoding files are optional and poppler will automatically read them if they are present. When installed, the encoding files enables poppler to correctly render CJK and Cyrrilic properly. While poppler is licensed under the GPL, these encoding files have different license, and thus distributed separately.

popt

Homepage:
Spack package:
Versions:
1.16
Build Dependencies:
gnuconfig, iconv
Link Dependencies:
iconv
Description:
The popt library parses command line options.

porta

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
libtool
Description:
PORTA is a collection of routines for analyzing polytopes and polyhedra

portage

Homepage:
Spack package:
Versions:
master, 3.0.0
Build Dependencies:
cmake, mpi, kokkos, thrust, jali, tangram, wonton
Link Dependencies:
mpi, kokkos, thrust, jali, tangram, wonton
Description:
Portage is a framework that computational physics applications can use to build a highly customized, hybrid parallel (MPI+X) conservative remapping library for transfer of field data between meshes.

portcullis

Homepage:
Spack package:
Versions:
1.2.3, 1.1.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, boost, m4, zlib, samtools, python, py-setuptools, py-pandas, py-sphinx
Link Dependencies:
boost, py-sphinx
Run Dependencies:
python, py-setuptools, py-pandas
Description:
PORTable CULLing of Invalid Splice junctions

ports-of-call

Homepage:
Spack package:
Versions:
main, 1.1.0
Build Dependencies:
cuda, cmake, py-sphinx, py-sphinx-rtd-theme, py-sphinx-multiversion
Link Dependencies:
cuda, cmake, py-sphinx, py-sphinx-rtd-theme, py-sphinx-multiversion
Description:
Ports of Call: Performance Portability Utilities

postgis

Homepage:
Spack package:
Versions:
3.0.1, 3.0.0, 2.5.3
Build Dependencies:
gnuconfig, postgresql, geos, proj, gdal, libxml2, json-c, sfcgal, pcre, perl, protobuf-c, gtkplus
Link Dependencies:
postgresql, geos, proj, gdal, libxml2, json-c, sfcgal, pcre, protobuf-c, gtkplus
Run Dependencies:
perl
Description:
PostGIS is a spatial database extender for PostgreSQL object-relational database. It adds support for geographic objects allowing location queries to be run in SQL

postgresql

Homepage:
Spack package:
Versions:
14.0, 12.2, 11.2, 11.1, 11.0, 10.7, 10.6, 10.5, 10.4, 10.3, 10.2, 10.1, 10.0, 9.6.12, 9.6.11, 9.5.3, 9.3.4
Build Dependencies:
gnuconfig, readline, libedit, openssl, tcl, perl, python, libxml2
Link Dependencies:
readline, libedit, openssl, tcl, perl, python, libxml2
Description:
PostgreSQL is a powerful, open source object-relational database system. It has more than 15 years of active development and a proven architecture that has earned it a strong reputation for reliability, data integrity, and correctness.

povray

Homepage:
Spack package:
Versions:
3.7.0.8
Build Dependencies:
gnuconfig, autoconf, automake, perl, m4, boost, zlib, libpng, jpeg, libtiff, mkl, openexr
Link Dependencies:
boost, zlib, libpng, jpeg, libtiff, mkl, openexr
Description:
The Persistence of Vision Raytracer creates three-dimensional, photo- realistic images using a rendering technique called ray-tracing. It reads in a text file containing information describing the objects and lighting in a scene and generates an image of that scene from the view point of a camera also described in the text file. Ray-tracing is not a fast process by any means, but it produces very high quality images with realistic reflections, shading, perspective and other effects.

powerapi

Homepage:
Spack package:
Versions:
2020-01-30, 1.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, hwloc, mpi
Link Dependencies:
autoconf, automake, libtool, m4, hwloc, mpi
Description:
This software is a reference implementation of the PowerAPI

powertop

Homepage:
Spack package:
Versions:
2.9
Build Dependencies:
gnuconfig, libnl
Link Dependencies:
libnl, ncurses
Description:
Powertop is a Linux tool to diagnose issues with power consumption and power management

ppl

Homepage:
Spack package:
Versions:
1.2, 1.1
Build Dependencies:
gmp
Link Dependencies:
gmp
Description:
The Parma Polyhedra Library (PPL) provides numerical abstractions especially targeted at applications in the field of analysis and verification of complex systems. These abstractions include convex polyhedra, some special classes of polyhedra shapes that offer interesting complexity/precision tradeoffs, and grids which represent regularly spaced points that satisfy a set of linear congruence relations. The library also supports finite powersets and products of polyhedra and grids, a mixed integer linear programming problem solver using an exact-arithmetic version of the simplex algorithm, a parametric integer programming solver, and primitives for termination analysis via the automatic synthesis of linear ranking functions.

pplacer

Homepage:
Spack package:
Versions:
1.1.alpha19
Description:
Pplacer places query sequences on a fixed reference phylogenetic tree to maximize phylogenetic likelihood or posterior probability according to a reference alignment. Pplacer is designed to be fast, to give useful information about uncertainty, and to offer advanced visualization and downstream analysis.

ppopen-appl-amr-fdm

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-APPL/AMR-FDM is an adaptive mesh refinement (AMR) framework for development of 3D parallel finite-difference method (FDM) applications.

ppopen-appl-bem

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-APPL/BEM is software used to support a boundary element analysis executed on a parallel computer. The current version includes a software framework for a parallel BEM analysis and an H-matrix library. If you want to use the framework based on dense matrix computations, please move to the directory 'src/framework' and 'src/framework_with_template'. If you want to use the H-matrix library, please move to the directly 'src/HACApK_with_BEM-BB-framework_1.0.0'.

ppopen-appl-bem-at

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Run Dependencies:
ppopen-appl-bem
Description:
ppOpen-APPL/BEM-AT is ppOpen-APPL/Bem with auto tuning. If you want to use ppOpen-APPL/BERM-AT, please copy files in src/framework_with_template from ppOpen-APPL/BEM install directory.

ppopen-appl-dem-util

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-APPL/DEM provides fundamental components of the particle simulations based on the discrete element method (DEM). ppOpen-APPL/DEM (ver.1.0.0) includes the libraries for the DEM, sample codes, and data sets. ppOpen-APPL/DEM-Util provides the preconditioning utilities. This utility prepares data sets of distributed data files from the mesh data sets.

ppopen-appl-fdm

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
ppopen-math-vis, mpi
Description:
ppOpen-APPL/FDM is a application software for the FDM simulation of seismic wave propagation in elastic media in 2D and 3D. The 2D application is prepared for a single-CPU (sequential) calculation and the 3D application use MPI and OpenMP for parallel computing.

ppopen-appl-fdm-at

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-APPL/FDM with Auto-Tuning

ppopen-appl-fem

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi, metis
Link Dependencies:
mpi, metis
Description:
ppOpen-APPL/FEM (ppohFEM) is a middleware to allow a Finite Element Method (FEM) analysis code developer to devote himself to development of the application software by offering a function commonly used in FEM.

ppopen-appl-fvm

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi, metis
Link Dependencies:
mpi, metis
Description:
ppOpen-APPL/FVM ia a coupling library that enables weak coupling on various simulation models, such as an atmospheric model and an ocean model, a seismic model and a structure model. For getting very wide applicability, ppohMATHMP is designed so as that it is independent from grid structure. Instead of grid structure, ppOpen-APPL/FVM requires a data set called 'mapping table'. Mapping table is composed of a correspondence table of grid indexes between a send model and a receive model and interpolation coefficients. A subroutine for making a mapping table file is provided by ppohMATHMP API. Current version of ppohMATHMP is ver.1.0 which targets scalar data exchange. An exchange code of vector data which requires rotation calculation is under

ppopen-at

Homepage:
Spack package:
Versions:
master
Description:
ppOpen-AT is a part of the ppOpenHPC

ppopen-math-mp

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-Math/MP ia a coupling library that enables weak coupling on various simulation models, such as an atmospheric model and an ocean model, a seismic model and a structure model. For getting very wide applicability, ppOpen-Math/MP is designed so as that it is independent from grid structure. Instead of grid structure, PpohMATHMP requires a data set called 'mapping table'. Mapping table is composed of a correspondence table of grid indexes between a send model and a receive model and interpolation coefficients. A subroutine for making a mapping table file is provided by ppOpen-Math/MP API. Current version of ppOpen- Math/MP is ver.1.0 which targets scalar data exchange. An exchange code of vector data which requires rotation calculation is under development and will be released the next version.

ppopen-math-vis

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ppOpen-MATH/VIS is a set of libraries for parallel visualization. Capabilities of ppOpen-MATH/VIS (ver.0.2.0) are as follows: Using background voxels with adaptive mesh refinement (AMR). Single UCD file. Flat MPI parallel programming models. (OpenMP/MPI hybrid will be supported in the future). Can be called from programs written in both of Fortran 90 and C. Only FDM-type structured meshes are supported.

prank

Homepage:
Spack package:
Versions:
170427
Build Dependencies:
mafft, exonerate, bpp-suite
Link Dependencies:
mafft, exonerate, bpp-suite
Description:
A powerful multiple sequence alignment browser.

precice

Homepage:
Spack package:
Versions:
develop, 2.4.0, 2.3.0, 2.2.1, 2.2.0, 2.1.1, 2.1.0, 2.0.2, 2.0.1, 2.0.0, 1.6.1, 1.6.0, 1.5.2, 1.5.1, 1.5.0, 1.4.1, 1.4.0, 1.3.0, 1.2.0
Build Dependencies:
cmake, pkgconfig, boost, eigen, libxml2, mpi, petsc, python, py-numpy
Link Dependencies:
boost, eigen, libxml2, mpi, petsc
Run Dependencies:
python, py-numpy
Description:
preCICE (Precise Code Interaction Coupling Environment) is a coupling library for partitioned multi-physics simulations. Partitioned means that preCICE couples existing programs (solvers) capable of simulating a subpart of the complete physics involved in a simulation.

predixy

Homepage:
Spack package:
Versions:
1.0.5, 1.0.4, 1.0.3
Description:
Predixy is a high performance and fully featured proxy for redis sentinel and redis cluster.

premake-core

Homepage:
Spack package:
Versions:
5.0.0-alpha15, 5.0.0-alpha14, 5.0.0-alpha13
Description:
Premake is a command line utility which reads a scripted definition of a software project, then uses it to perform build configuration tasks or generate project files for toolsets like Visual Studio, Xcode, and GNU Make. Premake's scripts are little Lua programs, so the sky's the limit!

presentproto

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Present protocol specification and Xlib/Xserver headers.

preseq

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
samtools, gsl
Link Dependencies:
samtools, gsl
Description:
The preseq package is aimed at predicting and estimating the complexity of a genomic sequencing library, equivalent to predicting and estimating the number of redundant reads from a given sequencing depth and how many will be expected from additional sequencing using an initial sequencing experiment.

presto

Homepage:
Spack package:
Versions:
0.239, 0.238.2, 0.238.1, 0.238, 0.237.2, 0.237.1, 0.237, 0.236.1, 0.236, 0.235.1
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Presto is a distributed SQL query engine for big data.

price

Homepage:
Spack package:
Versions:
140408
Description:
PRICE (Paired-Read Iterative Contig Extension): a de novo genome assembler implemented in C++.

primer3

Homepage:
Spack package:
Versions:
2.5.0, 2.3.7
Description:
Primer3 is a widely used program for designing PCR primers (PCR = "Polymerase Chain Reaction"). PCR is an essential and ubiquitous tool in genetics and molecular biology. Primer3 can also design hybridization probes and sequencing primers.

prinseq-lite

Homepage:
Spack package:
Versions:
0.20.4
Run Dependencies:
perl, perl-cairo, perl-digest-md5, perl-json
Description:
PRINSEQ will help you to preprocess your genomic or metagenomic sequence data in FASTA or FASTQ format.

printproto

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
Xprint extension to the X11 protocol - a portable, network-transparent printing system.

prism

Homepage:
Spack package:
Versions:
4.5
Build Dependencies:
java
Run Dependencies:
java
Description:
PRISM is a probabilistic model checker, a tool for formal modelling and analysis of systems that exhibit random or probabilistic behaviour.

prmon

Homepage:
Spack package:
Versions:
main, 3.0.1, 3.0.0, 2.2.1, 2.2.0, 2.1.1, 1.1.1
Build Dependencies:
cmake, nlohmann-json, spdlog
Link Dependencies:
nlohmann-json, spdlog
Run Dependencies:
py-matplotlib
Description:
Standalone monitor for process resource consumption.

prng

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
gnuconfig, automake, autoconf, libtool, m4
Description:
Pseudo-Random Number Generator library.

probconsrna

Homepage:
Spack package:
Versions:
2005-6-7
Description:
Experimental version of PROBCONS with parameters estimated via unsupervised training on BRAliBASE

procenv

Homepage:
Spack package:
Versions:
0.51
Build Dependencies:
gnuconfig, expat, libpcap, numactl, check
Link Dependencies:
expat, libpcap, numactl
Description:
A command-line tool that displays as much detail about itself and its environment as possible. It can be used as a test tool, to understand the type of environment a process runs in, and for comparing system environments.

process-in-process

Homepage:
Spack package:
Versions:
3, 2
Build Dependencies:
texinfo, systemtap
Link Dependencies:
systemtap
Description:
Process-in-Process

procps

Homepage:
Spack package:
Versions:
master, 3.3.15
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, iconv, gettext, ncurses
Link Dependencies:
iconv, gettext, ncurses
Test Dependencies:
dejagnu
Description:
Command line and full screen utilities for browsing procfs, a "pseudo" file system dynamically generated by the kernel to provide information about the status of entries in its process table.

procps-ng

Homepage:
Spack package:
Versions:
3.3.16
Build Dependencies:
gnuconfig
Description:
Utilities that provide system information.

prod-util

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
cmake, w3nco
Link Dependencies:
w3nco
Description:
Product utilities for the NCEP models. This is part of NOAA's NCEPLIBS project.

prodigal

Homepage:
Spack package:
Versions:
2.6.3
Description:
Fast, reliable protein-coding gene prediction for prokaryotic genomes.

professor

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
yoda, eigen, py-cython, py-iminuit, py-matplotlib, root, python
Link Dependencies:
yoda, eigen, py-cython, py-iminuit, py-matplotlib, root
Run Dependencies:
python
Description:
Professor Monte-Carlo tuning package

profugusmc

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cuda, cmake, blas, lapack, mpi
Link Dependencies:
cuda, blas, lapack, mpi
Description:
ProfugusMC is a Monte Carlo radiation transport mini-app. It is designed to be a minimal, self-contained version of the Profugus application.

proj

Homepage:
Spack package:
Versions:
8.2.1, 8.2.0, 8.1.1, 8.1.0, 8.0.1, 8.0.0, 7.2.1, 7.2.0, 7.1.0, 7.0.1, 7.0.0, 6.3.2, 6.3.1, 6.2.0, 6.1.0, 6.0.0, 5.2.0, 5.1.0, 5.0.1, 4.9.2, 4.9.1, 4.8.0, 4.7.0, 4.6.1
Build Dependencies:
gnuconfig, pkgconfig, googletest, sqlite, libtiff, curl
Link Dependencies:
googletest, sqlite, libtiff, curl
Description:
PROJ is a generic coordinate transformation software, that transforms geospatial coordinates from one coordinate reference system (CRS) to another. This includes cartographic projections as well as geodetic transformations.

prokka

Homepage:
Spack package:
Versions:
1.14.6
Run Dependencies:
perl, perl-bioperl, perl-xml-simple, perl-bio-searchio-hmmer, hmmer, blast-plus, prodigal, tbl2asn
Description:
Prokka is a software tool to annotate bacterial, archaeal and viral genomes quickly and produce standards-compliant output files.

prometheus

Homepage:
Spack package:
Versions:
2.19.2, 2.19.1, 2.18.2, 2.17.1, 2.17.0
Build Dependencies:
go, node-js, yarn
Description:
Prometheus, a Cloud Native Computing Foundation project, is a systems and service monitoring system.

prophecy4f

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
collier
Link Dependencies:
collier
Description:
Prophecy4f is a Monte Carlo integrator for Higgs decays H -> WW/ZZ -> 4 fermions.

protobuf

Homepage:
Spack package:
Versions:
3.18.0, 3.17.3, 3.17.0, 3.16.0, 3.15.7, 3.15.5, 3.15.4, 3.15.2, 3.15.1, 3.15.0, 3.14.0, 3.13.0, 3.12.3, 3.12.2, 3.12.1, 3.12.0, 3.11.4, 3.11.3, 3.11.2, 3.11.1, 3.11.0, 3.10.1, 3.10.0, 3.9.2, 3.9.1, 3.7.1, 3.7.0, 3.6.1, 3.5.2, 3.5.1.1, 3.5.1, 3.5.0.1, 3.5.0, 3.4.1, 3.4.0, 3.3.0, 3.2.0, 3.1.0, 3.0.2, 2.5.0
Build Dependencies:
cmake, zlib, autoconf, automake, libtool, m4
Link Dependencies:
zlib
Description:
Google's data interchange format.

protobuf-c

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
gnuconfig, protobuf, pkgconfig
Link Dependencies:
protobuf
Description:
Protocol Buffers implementation in C

proxymngr

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libice, libxt, lbxproxy, xproto, xproxymanagementprotocol, pkgconfig, util-macros
Link Dependencies:
libice, libxt, lbxproxy, xproto, xproxymanagementprotocol
Description:
The proxy manager (proxymngr) is responsible for resolving requests from xfindproxy (and other similar clients), starting new proxies when appropriate, and keeping track of all of the available proxy services. The proxy manager strives to reuse existing proxies whenever possible.

prrte

Homepage:
Spack package:
Versions:
develop, 1.0.0
Build Dependencies:
gnuconfig, pmix, libevent, hwloc, perl, m4, autoconf, automake, libtool, flex
Link Dependencies:
pmix, libevent, hwloc
Description:
PRRTE is the Reference RunTime Environment implementation for PMIx. It is capable of operating within a host SMS. The reference RTE therefore provides an easy way of exploring PMIx capabilities and testing PMIx- based applications outside of a PMIx-enabled environment.

pruners-ninja

Homepage:
Spack package:
Versions:
master, 1.0.1, 1.0.0
Build Dependencies:
gnuconfig, mpi, autoconf, automake, libtool
Link Dependencies:
mpi
Description:
NINJA: Noise Inject agent tool to expose subtle and unintended message races.

ps-lite

Homepage:
Spack package:
Versions:
master, 20170328
Build Dependencies:
cmake, protobuf, libzmq
Link Dependencies:
protobuf, libzmq
Description:
ps-lite is A light and efficient implementation of the parameter server framework.

psi4

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
cmake, blas, lapack, boost, python, py-numpy
Link Dependencies:
blas, lapack, boost, python
Run Dependencies:
py-numpy
Description:
Psi4 is an open-source suite of ab initio quantum chemistry programs designed for efficient, high-accuracy simulations of a variety of molecular properties.

psimd

Homepage:
Spack package:
Versions:
master, 2020-05-17, 2019-12-26, 2018-09-06, 2017-10-26
Build Dependencies:
cmake, ninja
Description:
Portable 128-bit SIMD intrinsics.

pslib

Homepage:
Spack package:
Versions:
0.4.5
Build Dependencies:
gnuconfig, jpeg, libpng
Link Dependencies:
jpeg, libpng
Description:
C-library to create PostScript files on the fly.

psm

Homepage:
Spack package:
Versions:
2017-04-28, 3.3
Build Dependencies:
uuid
Link Dependencies:
uuid
Description:
Intel Performance scaled messaging library

psmc

Homepage:
Spack package:
Versions:
2016-1-21
Link Dependencies:
zlib
Description:
mplementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

pstreams

Homepage:
Spack package:
Versions:
1.0.1
Description:
C++ wrapper for the POSIX.2 functions popen(3) and pclose(3)

pthreadpool

Homepage:
Spack package:
Versions:
master, 2021-04-13, 2020-10-05, 2020-06-15, 2019-10-29, 2018-10-08, 2018-02-25
Build Dependencies:
cmake, ninja, python
Description:
pthreadpool is a portable and efficient thread pool implementation.

pugixml

Homepage:
Spack package:
Versions:
1.11.4, 1.11, 1.10, 1.8.1
Build Dependencies:
cmake
Description:
Light-weight, simple, and fast XML parser for C++ with XPath support

pulseaudio

Homepage:
Spack package:
Versions:
13.0
Build Dependencies:
gnuconfig, alsa-lib, dbus, fftw, gdbm, gettext, glib, gconf, json-c, libcap, libiconv, libsndfile, libtool, libsm, uuid, libx11, libxcb, libxau, libxext, libxi, libxtst, openssl, perl-xml-parser, speexdsp
Link Dependencies:
alsa-lib, dbus, fftw, gdbm, gettext, glib, gconf, json-c, libcap, libiconv, libsndfile, libtool, libsm, uuid, libx11, libxcb, libxau, libxext, libxi, libxtst, openssl, speexdsp
Description:
PulseAudio is a sound system for POSIX OSes, meaning that it is a proxy for your sound applications. PulseAudio is a sound system for POSIX OSes, meaning that it is a proxy for your sound applications. It allows you to do advanced operations on your sound data as it passes between your application and your hardware. Things like transferring the audio to a different machine, changing the sample format or channel count and mixing several sounds into one are easily achieved using a sound server.

pumi

Homepage:
Spack package:
Versions:
master, 2.2.7, 2.2.6, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.0
Build Dependencies:
cmake, mpi, zoltan, simmetrix-simmodsuite
Link Dependencies:
mpi, zoltan, simmetrix-simmodsuite
Description:
SCOREC RPI's Parallel Unstructured Mesh Infrastructure (PUMI). An efficient distributed mesh data structure and methods to support parallel adaptive analysis including general mesh-based operations, such as mesh entity creation/deletion, adjacency and geometric classification, iterators, arbitrary (field) data attachable to mesh entities, efficient communication involving entities duplicated across multiple tasks, migration of mesh entities between tasks, and dynamic load balancing.

pv

Homepage:
Spack package:
Versions:
1.6.6
Build Dependencies:
gnuconfig
Description:
Pipe Viewer - is a terminal-based tool for monitoring the progress of data through a pipeline

pvm

Homepage:
Spack package:
Versions:
3.4.6
Build Dependencies:
m4
Link Dependencies:
libtirpc
Description:
PVM (Parallel Virtual Machine) is a software package that permits a heterogeneous collection of Unix and/or Windows computers hooked together by a network to be used as a single large parallel computer.

pxz

Homepage:
Spack package:
Versions:
develop, 4.999.9beta.20091201git
Build Dependencies:
xz
Link Dependencies:
xz
Description:
Pxz is a parallel LZMA compressor using liblzma.

py-3to2

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
lib3to2 is a set of fixers that are intended to backport code written for Python version 3.x into Python version 2.x.

py-4suite-xml

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
XML tools and libraries for Python: Domlette, XPath, XSLT, XPointer, XLink, XUpdate

py-abcpy

Homepage:
Spack package:
Versions:
0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, py-glmnet, py-mpi4py, py-cloudpickle, py-matplotlib, py-tqdm, py-pot, py-sphinx, py-sphinx-rtd-theme, py-coverage
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-glmnet, py-mpi4py, py-cloudpickle, py-matplotlib, py-tqdm, py-pot
Description:
ABCpy is a highly modular, scientific library for approximate Bayesian computation (ABC) written in Python. It is designed to run all included ABC algorithms in parallel, either using multiple cores of a single computer or using an Apache Spark or MPI enabled cluster.

py-absl-py

Homepage:
Spack package:
Versions:
0.13.0, 0.12.0, 0.11.0, 0.10.0, 0.7.1, 0.7.0, 0.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-enum34
Run Dependencies:
python, py-six, py-enum34
Description:
This repository is a collection of Python library code for building Python applications. The code is collected from Google's own Python code base, and has been extensively tested and used in production.

py-accimage

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, jpeg, ipp
Link Dependencies:
python, jpeg, ipp
Run Dependencies:
python
Test Dependencies:
py-pytest, py-numpy, py-imageio
Description:
An accelerated Image loader and preprocessor leveraging Intel IPP. accimage mimics the PIL API and can be used as a backend for torchvision.

py-acme-tiny

Homepage:
Spack package:
Versions:
master, 4.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python, py-setuptools
Description:
A tiny script to issue and renew TLS certs from Let's Encrypt.

py-adal

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyjwt, py-requests, py-python-dateutil, py-cryptography
Run Dependencies:
python, py-pyjwt, py-requests, py-python-dateutil, py-cryptography
Description:
The ADAL for Python library makes it easy for python application to authenticate to Azure Active Directory (AAD) in order to access AAD protected web resources. DEPRECATED: replaced by MSAL Python.

py-adb-enhanced

Homepage:
Spack package:
Versions:
2.5.10, 2.5.4, 2.5.3, 2.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docopt, py-future, py-psutil, py-asyncio
Run Dependencies:
python, py-setuptools, py-docopt, py-future, py-psutil, py-asyncio
Description:
ADB-Enhanced is a Swiss-army knife for Android testing and development. A command-line interface to trigger various scenarios like screen rotation, battery saver mode, data saver mode, doze mode, permission grant/revocation.

py-addict

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
addict is a Python module that gives you dictionaries whose values are both gettable and settable using attributes, in addition to standard item-syntax.

py-adios

Homepage:
Spack package:
Versions:
develop, 1.13.1, 1.13.0, 1.12.0, 1.11.1, 1.11.0, 1.10.0, 1.9.0
Build Dependencies:
python, py-pip, py-wheel, adios, py-setuptools, py-numpy, mpi, py-cython
Link Dependencies:
adios, mpi
Run Dependencies:
python, adios, py-numpy, py-mpi4py
Description:
NumPy bindings of ADIOS1

py-advancedhtmlparser

Homepage:
Spack package:
Versions:
8.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-queryablelist
Run Dependencies:
python, py-queryablelist
Description:
Fast Indexed python HTML parser which builds a DOM node tree, providing common getElementsBy* functions for scraping, testing, modification, and formatting

py-aenum

Homepage:
Spack package:
Versions:
2.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Advanced Enumerations (compatible with Python's stdlib Enum), NamedTuples, and NamedConstants.

py-affine

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Matrices describing affine transformation of the plane.

py-agate

Homepage:
Spack package:
Versions:
1.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pytimeparse, py-parsedatetime, py-babel, py-isodate, py-python-slugify, py-leather
Run Dependencies:
python, py-six, py-pytimeparse, py-parsedatetime, py-babel, py-isodate, py-python-slugify, py-leather
Description:
agate is a Python data analysis library that is optimized for humans instead of machines. It is an alternative to numpy and pandas that solves real-world problems with readable code.

py-agate-dbf

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-agate, py-dbfread
Run Dependencies:
python, py-agate, py-dbfread
Description:
agate-dbf adds read support for dbf files to agate.

py-agate-excel

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-agate, py-xlrd, py-openpyxl
Run Dependencies:
python, py-agate, py-xlrd, py-openpyxl
Description:
agate-excel adds read support for Excel files (xls and xlsx) to agate.

py-agate-sql

Homepage:
Spack package:
Versions:
0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-agate, py-sqlalchemy
Run Dependencies:
python, py-agate, py-sqlalchemy
Description:
agate-sql adds SQL read/write support to agate.

py-aiobotocore

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-botocore, py-aiohttp, py-wrapt, py-aioitertools
Run Dependencies:
python, py-botocore, py-aiohttp, py-wrapt, py-aioitertools
Description:
Async client for amazon services using botocore and aiohttp/asyncio.

py-aiodns

Homepage:
Spack package:
Versions:
2.0.0, 1.2.0, 1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing, py-pycares
Run Dependencies:
python, py-typing, py-pycares
Description:
Simple DNS resolver for asyncio.It provides a simple way for doing asynchronous DNS resolutions using pycares.

py-aiofiles

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
aiofiles is an Apache2 licensed library, written in Python, for handling local disk files in asyncio applications.

py-aiohttp

Homepage:
Spack package:
Versions:
3.8.1, 3.8.0, 3.7.4, 3.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-charset-normalizer, py-attrs, py-chardet, py-multidict, py-async-timeout, py-asynctest, py-yarl, py-idna-ssl, py-typing-extensions, py-frozenlist, py-aiosignal
Run Dependencies:
python, py-charset-normalizer, py-attrs, py-chardet, py-multidict, py-async-timeout, py-asynctest, py-yarl, py-idna-ssl, py-typing-extensions, py-frozenlist, py-aiosignal
Description:
Supports both client and server side of HTTP protocol. Supports both client and server Web-Sockets out-of-the-box and avoids Callbacks. Provides Web-server with middlewares and plugable routing.

py-aiohttp-cors

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-aiohttp, py-typing
Run Dependencies:
python, py-aiohttp, py-typing
Description:
aiohttp_cors library implements Cross Origin Resource Sharing (CORS) support for aiohttp asyncio-powered asynchronous HTTP server.

py-aioitertools

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-typing-extensions
Run Dependencies:
python, py-typing-extensions
Description:
Implementation of itertools, builtins, and more for AsyncIO and mixed- type iterables.

py-aioredis

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-async-timeout, py-hiredis
Run Dependencies:
python, py-async-timeout, py-hiredis
Description:
asyncio (PEP 3156) Redis support.

py-aiosignal

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-frozenlist
Run Dependencies:
python, py-frozenlist
Description:
A project to manage callbacks in asyncio projects.

py-aiosqlite

Homepage:
Spack package:
Versions:
0.17.0
Build Dependencies:
python, py-pip, py-wheel, py-typing-extensions, py-flit-core
Run Dependencies:
python, py-typing-extensions
Description:
asyncio bridge to the standard sqlite3 module

py-alabaster

Homepage:
Spack package:
Versions:
0.7.12, 0.7.10, 0.7.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Alabaster is a visually (c)lean, responsive, configurable theme for the Sphinx documentation system.

py-alembic

Homepage:
Spack package:
Versions:
1.5.5, 1.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sqlalchemy, py-mako, py-python-dateutil, py-python-editor
Run Dependencies:
python, py-sqlalchemy, py-mako, py-python-dateutil, py-python-editor
Description:
Alembic is a database migrations tool.

py-altgraph

Homepage:
Spack package:
Versions:
0.16.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
altgraph is a fork of graphlib: a graph (network) package for constructing graphs, BFS and DFS traversals, topological sort, shortest paths, etc. with graphviz output.

py-amqp

Homepage:
Spack package:
Versions:
5.0.9, 5.0.1, 2.6.1, 2.5.2, 2.4.2, 2.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-vine
Run Dependencies:
python, py-vine
Description:
Low-level AMQP client for Python (fork of amqplib).

py-angel

Homepage:
Spack package:
Versions:
3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scikit-learn, py-biopython
Run Dependencies:
python, py-numpy, py-scikit-learn, py-biopython
Description:
ANGEL: Robust Open Reading Frame prediction

py-aniso8601

Homepage:
Spack package:
Versions:
9.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A library for parsing ISO 8601 strings.

py-annexremote

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future
Run Dependencies:
python, py-future
Description:
git annex special remotes made easy.

py-ansi2html

Homepage:
Spack package:
Versions:
1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Convert text with ansi color codes to HTML

py-ansible

Homepage:
Spack package:
Versions:
2.9.2, 2.9.1, 2.9.0, 2.8.7, 2.8.6, 2.7.15, 2.7.14, 2.6.20
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jinja2, py-pyyaml, py-cryptography
Run Dependencies:
python, py-jinja2, py-pyyaml, py-cryptography
Description:
Ansible is a radically simple IT automation platform that makes your applications and systems easier to deploy.

py-antlr4-python3-runtime

Homepage:
Spack package:
Versions:
4.8, 4.7.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing
Run Dependencies:
python, py-typing
Description:
This package provides runtime libraries required to use parsers generated for the Python3 language by version 4 of ANTLR (ANother Tool for Language Recognition).

py-anuga

Homepage:
Spack package:
Versions:
main, 2.1
Build Dependencies:
python, py-pip, py-wheel, gdal, py-future, py-matplotlib, py-numpy, py-setuptools, py-mpi4py, py-setuptools-scm, py-pypar, py-cython, py-netcdf4, py-dill, py-nose, py-scipy, py-triangle
Run Dependencies:
python, gdal, py-future, py-matplotlib, py-numpy, py-mpi4py, py-pypar, py-netcdf4, mpi
Test Dependencies:
py-dill, py-nose, py-scipy, py-triangle, mpi
Description:
ANUGA (pronounced "AHnooGAH") is open-source software for the simulation of the shallow water equation, in particular it can be used to model tsunamis and floods.

py-anyio

Homepage:
Spack package:
Versions:
3.5.0, 3.3.4, 3.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-contextvars, py-dataclasses, py-idna, py-sniffio, py-typing-extensions, py-async-generator
Run Dependencies:
python, py-contextvars, py-dataclasses, py-idna, py-sniffio, py-typing-extensions, py-async-generator
Description:
High level compatibility layer for multiple asynchronous event loop implementations.

py-anytree

Homepage:
Spack package:
Versions:
2.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-ordereddict
Run Dependencies:
python, py-six, py-ordereddict
Description:
Python tree data library - lightweight and extensible Tree data structure.

py-apache-libcloud

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python library for multiple cloud provider APIs

py-apex

Homepage:
Spack package:
Versions:
0.9.10dev
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
apex: Pyramid toolkit to add Velruse, Flash Messages,CSRF, ReCaptcha and Sessions.

py-apipkg

Homepage:
Spack package:
Versions:
1.5, 1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
apipkg: namespace control and lazy-import mechanism

py-appdirs

Homepage:
Spack package:
Versions:
1.4.4, 1.4.3, 1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A small Python module for determining appropriate platform-specific dirs, e.g. a "user data dir".

py-applicationinsights

Homepage:
Spack package:
Versions:
0.11.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This project extends the Application Insights API surface to support Python.

py-appnope

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Disable App Nap on OS X 10.9

py-apptools

Homepage:
Spack package:
Versions:
4.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-configobj, py-six, py-traitsui
Run Dependencies:
python, py-configobj, py-six, py-traitsui
Description:
The apptools project includes a set of packages that Enthought has found useful in creating a number of applications. They implement functionality that is commonly needed by many applications.

py-apscheduler

Homepage:
Spack package:
Versions:
3.3.1, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pytz, py-tzlocal
Run Dependencies:
python, py-six, py-pytz, py-tzlocal
Description:
In-process task scheduler with Cron-like capabilities.

py-archspec

Homepage:
Spack package:
Versions:
0.1.3, 0.1.2, 0.1.1, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-click, py-six, py-setuptools, py-poetry-core
Run Dependencies:
python, py-click, py-six
Description:
A library for detecting, labeling and reasoning about microarchitectures.

py-argcomplete

Homepage:
Spack package:
Versions:
2.0.0, 1.12.3, 1.12.0, 1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
Bash tab completion for argparse.

py-argh

Homepage:
Spack package:
Versions:
0.26.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-argparse
Run Dependencies:
python, py-argparse
Description:
An argparse wrapper that doesn't make you say "argh" each time you deal with it. Building a command-line interface? Found yourself uttering "argh!" while struggling with the API of argparse? Don't like the complexity but need the power? Argh is a smart wrapper for argparse. Argparse is a very powerful tool; Argh just makes it easy to use.

py-argon2-cffi

Homepage:
Spack package:
Versions:
21.3.0, 21.1.0, 20.1.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-setuptools, py-argon2-cffi-bindings, py-dataclasses, py-typing-extensions, py-cffi, py-six, py-enum34
Run Dependencies:
python, py-argon2-cffi-bindings, py-dataclasses, py-typing-extensions, py-cffi, py-six, py-enum34
Description:
The secure Argon2 password hashing algorithm..

py-argon2-cffi-bindings

Homepage:
Spack package:
Versions:
21.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-cffi
Run Dependencies:
python, py-cffi
Description:
Low-level CFFI bindings for Argon2.

py-argparse

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python command-line parsing library.

py-args

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Command Arguments for Humans.

py-arrow

Homepage:
Spack package:
Versions:
0.16.0, 0.14.7, 0.14.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-functools-lru-cache, py-python-dateutil
Run Dependencies:
python, py-backports-functools-lru-cache, py-python-dateutil
Description:
Arrow is a Python library that offers a sensible and human-friendly approach to creating, manipulating, formatting and converting dates, times and timestamps. It implements and updates the datetime type, plugging gaps in functionality and providing an intelligent module API that supports many common creation scenarios. Simply put, it helps you work with dates and times with fewer imports and a lot less code.

py-arviz

Homepage:
Spack package:
Versions:
0.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy, py-scipy, py-packaging, py-pandas, py-xarray, py-netcdf4
Run Dependencies:
python, py-matplotlib, py-numpy, py-scipy, py-packaging, py-pandas, py-xarray, py-netcdf4
Description:
ArviZ (pronounced "AR-vees") is a Python package for exploratory analysis of Bayesian models. Includes functions for posterior analysis, model checking, comparison and diagnostics.

py-asciitree

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Draws ASCII trees.

py-asdf

Homepage:
Spack package:
Versions:
2.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-semantic-version, py-pyyaml, py-jsonschema, py-six, py-numpy
Run Dependencies:
python, py-semantic-version, py-pyyaml, py-jsonschema, py-six, py-numpy
Description:
The Advanced Scientific Data Format (ASDF) is a next-generation interchange format for scientific data. This package contains the Python implementation of the ASDF Standard.

py-ase

Homepage:
Spack package:
Versions:
3.21.1, 3.21.0, 3.20.1, 3.19.3, 3.19.2, 3.19.1, 3.19.0, 3.18.2, 3.18.1, 3.18.0, 3.15.0, 3.13.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-matplotlib, py-scipy, py-flask, py-setuptools
Run Dependencies:
python, py-numpy, py-matplotlib, py-scipy, py-flask
Description:
The Atomic Simulation Environment (ASE) is a set of tools and Python modules for setting up, manipulating, running, visualizing and analyzing atomistic simulations.

py-asgiref

Homepage:
Spack package:
Versions:
3.5.0, 3.2.7, 3.2.6, 3.2.5, 3.2.4, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.4, 3.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing-extensions
Run Dependencies:
python, py-typing-extensions
Description:
ASGI specification and utilities.

py-asn1crypto

Homepage:
Spack package:
Versions:
1.4.0, 0.24.0, 0.22.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python ASN.1 library with a focus on performance and a pythonic API

py-aspy-yaml

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml
Run Dependencies:
python, py-pyyaml
Description:
Some extensions to pyyaml.

py-asserts

Homepage:
Spack package:
Versions:
0.10.0, 0.9.1, 0.9.0, 0.8.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Stand-alone Assertions.

py-asteval

Homepage:
Spack package:
Versions:
0.9.25, 0.9.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Safe, minimalistic evaluator of python expression using ast module

py-astor

Homepage:
Spack package:
Versions:
0.8.1, 0.8.0, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
astor is designed to allow easy manipulation of Python source via the AST.

py-astpretty

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typed-ast
Run Dependencies:
python, py-setuptools, py-typed-ast
Description:
Pretty print the output of python stdlib `ast.parse`.

py-astroid

Homepage:
Spack package:
Versions:
2.11.4, 2.8.3, 2.7.3, 2.5.6, 2.4.2, 2.3.3, 2.2.5, 2.2.0, 2.0.4, 1.6.6, 1.4.5, 1.4.4, 1.4.3, 1.4.2, 1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-lazy-object-proxy, py-six, py-wrapt, py-enum34, py-singledispatch, py-backports-functools-lru-cache, py-typed-ast, py-typing-extensions, py-setuptools
Link Dependencies:
py-typed-ast
Run Dependencies:
python, py-lazy-object-proxy, py-six, py-wrapt, py-enum34, py-singledispatch, py-backports-functools-lru-cache, py-typed-ast, py-typing-extensions, py-setuptools
Description:
A common base representation of python source code for pylint and other projects.

py-astropy

Homepage:
Spack package:
Versions:
4.0.1.post1, 3.2.1, 2.0.14, 1.1.2, 1.1.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, pkgconfig, py-scipy, py-h5py, py-beautifulsoup4, py-html5lib, py-bleach, py-pyyaml, py-pandas, py-bintrees, py-sortedcontainers, py-pytz, py-jplephem, py-matplotlib, py-scikit-image, py-mpmath, py-asdf, py-bottleneck, py-pytest, erfa, wcslib, cfitsio, expat
Link Dependencies:
erfa, wcslib, cfitsio, expat
Run Dependencies:
python, py-numpy, py-scipy, py-h5py, py-beautifulsoup4, py-html5lib, py-bleach, py-pyyaml, py-pandas, py-bintrees, py-sortedcontainers, py-pytz, py-jplephem, py-matplotlib, py-scikit-image, py-mpmath, py-asdf, py-bottleneck, py-pytest
Description:
The Astropy Project is a community effort to develop a single core package for Astronomy in Python and foster interoperability between Python astronomy packages.

py-astropy-healpix

Homepage:
Spack package:
Versions:
0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-astropy, py-numpy
Run Dependencies:
python, py-setuptools, py-astropy, py-numpy
Description:
HEALPix (Hierarchical Equal Area isoLatitude Pixelisation) is an algorithm for pixellizing a sphere that is sometimes used in Astronomy to store data from all-sky surveys, but the general algorithm can apply to any field that has to deal with representing data on a sphere.

py-astropy-helpers

Homepage:
Spack package:
Versions:
4.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The astropy-helpers package includes many build, installation, and documentation-related tools used by the Astropy project, but packaged separately for use by other projects that wish to leverage this work.

py-asttokens

Homepage:
Spack package:
Versions:
2.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six
Run Dependencies:
python, py-six
Description:
Annotate AST trees with source code positions.

py-astunparse

Homepage:
Spack package:
Versions:
1.6.3, 1.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-wheel, py-six
Description:
An AST unparser for Python. This is a factored out version of unparse found in the Python source distribution; under Demo/parser in Python 2 and under Tools/parser in Python 3.

py-async-generator

Homepage:
Spack package:
Versions:
1.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Provides async generator functionality to python 3.5.

py-async-lru

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple lru_cache for asyncio

py-async-timeout

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, 4.0.0, 3.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing-extensions
Run Dependencies:
python, py-typing-extensions
Description:
asyncio-compatible timeout context manager.

py-asyncio

Homepage:
Spack package:
Versions:
3.4.3, 3.4.2, 3.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The asyncio module provides infrastructure for writing single-threaded concurrent code using coroutines, multiplexing I/O access over sockets and other resources, running network clients and servers, and other related primitives.

py-asynctest

Homepage:
Spack package:
Versions:
0.13.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The package asynctest is built on top of the standard unittest module and cuts down boilerplate code when testing libraries for asyncio.

py-atomicwrites

Homepage:
Spack package:
Versions:
1.4.0, 1.3.0, 1.1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Atomic file writes.

py-atpublic

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing-extensions
Run Dependencies:
python, py-typing-extensions
Description:
This library provides two very simple decorators that document the publicness of the names in your module.

py-atropos

Homepage:
Spack package:
Versions:
1.1.22
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-tqdm, py-pysam
Run Dependencies:
python, py-setuptools, py-tqdm, py-pysam
Description:
Atropos is tool for specific, sensitive, and speedy trimming of NGS reads. It is a fork of the venerable Cutadapt read trimmer.

py-ats

Homepage:
Spack package:
Versions:
main, 7.0.100, 7.0.5
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
ATS - Automated Testing System - is an open-source, Python-based tool for automating the running of tests of an application across a broad range of high performance computers.

py-attrs

Homepage:
Spack package:
Versions:
21.4.0, 21.2.0, 20.3.0, 20.2.0, 20.1.0, 19.3.0, 19.2.0, 19.1.0, 18.1.0, 16.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Classes Without Boilerplate

py-audioread

Homepage:
Spack package:
Versions:
2.1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner
Run Dependencies:
python
Description:
cross-library (GStreamer + Core Audio + MAD + FFmpeg) audio decoding for Python.

py-autograd

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future, py-numpy
Run Dependencies:
python, py-future, py-numpy
Description:
Autograd can automatically differentiate native Python and Numpy code. It can handle a large subset of Python's features, including loops, ifs, recursion and closures, and it can even take derivatives of derivatives of derivatives. It supports reverse-mode differentiation (a.k.a. backpropagation), which means it can efficiently take gradients of scalar-valued functions with respect to array-valued arguments, as well as forward-mode differentiation, and the two can be composed arbitrarily. The main intended application of Autograd is gradient-based optimization. For more information, check out the tutorial and the examples directory.

py-autograd-gamma

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-autograd, py-scipy
Run Dependencies:
python, py-autograd, py-scipy
Description:
autograd compatible approximations to the derivatives of the Gamma- family of functions.

py-automat

Homepage:
Spack package:
Versions:
20.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-m2r, py-attrs, py-six
Run Dependencies:
python, py-attrs, py-six
Description:
Self-service finite-state machines for the programmer on the go.

py-autopep8

Homepage:
Spack package:
Versions:
1.6.0, 1.5.7, 1.4.4, 1.3.3, 1.2.4, 1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-pycodestyle, py-toml, py-setuptools
Run Dependencies:
python, py-pycodestyle, py-toml
Description:
autopep8 automatically formats Python code to conform to the PEP 8 style guide.

py-auxlib

Homepage:
Spack package:
Versions:
0.0.43
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, py-ordereddict
Run Dependencies:
python, py-wheel, py-enum34, py-ordereddict
Description:
Auxlib is an auxiliary library to the python standard library.

py-avro

Homepage:
Spack package:
Versions:
1.11.0, 1.10.2, 1.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Avro is a serialization and RPC framework.

py-avro-json-serializer

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-simplejson, py-avro
Run Dependencies:
python, py-simplejson, py-avro
Description:
Serializes data into a JSON format using AVRO schema.

py-avro-python3

Homepage:
Spack package:
Versions:
1.10.0, 1.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-isort, py-pycodestyle
Run Dependencies:
python
Description:
Apache Avro is a data serialization system. Note: lang/py3 version (this package) will be deprecated and lang/py functions will be made available for both python2 and python3.

py-awesome-slugify

Homepage:
Spack package:
Versions:
1.6.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-regex, py-unidecode
Run Dependencies:
python, py-regex, py-unidecode
Description:
Python flexible slugify function

py-awkward

Homepage:
Spack package:
Versions:
master, 1.8.0, 1.7.0, 1.5.1, 1.5.0, 1.4.0, 1.3.0, 1.2.3, 1.2.2, 1.1.2, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-numpy, py-pybind11, dlpack, rapidjson, cmake
Link Dependencies:
py-pybind11, dlpack, rapidjson
Run Dependencies:
python, py-setuptools, py-numpy
Description:
Manipulate JSON-like data with NumPy-like idioms.

py-awkward0

Homepage:
Spack package:
Versions:
0.15.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-numpy
Run Dependencies:
python, py-numpy
Description:
Manipulate arrays of complex data structures as easily as Numpy. Awkward Array is a pure Python+Numpy library for manipulating complex data structures as you would Numpy arrays.

py-awkward1

Homepage:
Spack package:
Versions:
1.1.2, 0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pybind11, dlpack, rapidjson, cmake
Link Dependencies:
py-pybind11, dlpack, rapidjson
Run Dependencies:
python, py-numpy
Description:
DEPRECATED! This package was renamed to py-awkward.

py-azote

Homepage:
Spack package:
Versions:
1.7.14, 1.7.12, 1.7.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Azote is a GTK+3 - based picture browser and background setter, as the frontend to the swaybg (sway/Wayland) and feh (X windows) commands.

py-azure-batch

Homepage:
Spack package:
Versions:
9.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-nspkg
Description:
Microsoft Azure Batch Client Library for Python.

py-azure-cli

Homepage:
Spack package:
Versions:
2.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-antlr4-python3-runtime, py-azure-batch, py-azure-cli-command-modules-nspkg, py-azure-cli-core, py-azure-cli-nspkg, py-azure-cosmos, py-azure-datalake-store, py-azure-functions-devops-build, py-azure-graphrbac, py-azure-keyvault, py-azure-mgmt-advisor, py-azure-mgmt-apimanagement, py-azure-mgmt-applicationinsights, py-azure-mgmt-appconfiguration, py-azure-mgmt-authorization, py-azure-mgmt-batch, py-azure-mgmt-batchai, py-azure-mgmt-billing, py-azure-mgmt-botservice, py-azure-mgmt-cdn, py-azure-mgmt-cognitiveservices, py-azure-mgmt-compute, py-azure-mgmt-consumption, py-azure-mgmt-containerinstance, py-azure-mgmt-containerregistry, py-azure-mgmt-containerservice, py-azure-mgmt-cosmosdb, py-azure-mgmt-datalake-analytics, py-azure-mgmt-datalake-store, py-azure-mgmt-datamigration, py-azure-mgmt-deploymentmanager, py-azure-mgmt-devtestlabs, py-azure-mgmt-dns, py-azure-mgmt-eventgrid, py-azure-mgmt-eventhub, py-azure-mgmt-hdinsight, py-azure-mgmt-imagebuilder, py-azure-mgmt-iotcentral, py-azure-mgmt-iothub, py-azure-mgmt-iothubprovisioningservices, py-azure-mgmt-keyvault, py-azure-mgmt-kusto, py-azure-mgmt-loganalytics, py-azure-mgmt-managedservices, py-azure-mgmt-managementgroups, py-azure-mgmt-maps, py-azure-mgmt-marketplaceordering, py-azure-mgmt-media, py-azure-mgmt-monitor, py-azure-mgmt-msi, py-azure-mgmt-netapp, py-azure-mgmt-network, py-azure-mgmt-policyinsights, py-azure-mgmt-privatedns, py-azure-mgmt-rdbms, py-azure-mgmt-recoveryservices, py-azure-mgmt-recoveryservicesbackup, py-azure-mgmt-redhatopenshift, py-azure-mgmt-redis, py-azure-mgmt-relay, py-azure-mgmt-reservations, py-azure-mgmt-search, py-azure-mgmt-security, py-azure-mgmt-servicebus, py-azure-mgmt-servicefabric, py-azure-mgmt-signalr, py-azure-mgmt-sql, py-azure-mgmt-sqlvirtualmachine, py-azure-mgmt-storage, py-azure-mgmt-trafficmanager, py-azure-mgmt-web, py-azure-multiapi-storage, py-azure-loganalytics, py-azure-storage-common, py-cryptography, py-fabric, py-jsmin, py-pytz, py-scp, py-sshtunnel, py-urllib3, py-vsts-cd-manager, py-websocket-client, py-xmltodict, py-javaproperties, py-jsondiff
Run Dependencies:
python, py-antlr4-python3-runtime, py-azure-batch, py-azure-cli-command-modules-nspkg, py-azure-cli-core, py-azure-cli-nspkg, py-azure-cosmos, py-azure-datalake-store, py-azure-functions-devops-build, py-azure-graphrbac, py-azure-keyvault, py-azure-mgmt-advisor, py-azure-mgmt-apimanagement, py-azure-mgmt-applicationinsights, py-azure-mgmt-appconfiguration, py-azure-mgmt-authorization, py-azure-mgmt-batch, py-azure-mgmt-batchai, py-azure-mgmt-billing, py-azure-mgmt-botservice, py-azure-mgmt-cdn, py-azure-mgmt-cognitiveservices, py-azure-mgmt-compute, py-azure-mgmt-consumption, py-azure-mgmt-containerinstance, py-azure-mgmt-containerregistry, py-azure-mgmt-containerservice, py-azure-mgmt-cosmosdb, py-azure-mgmt-datalake-analytics, py-azure-mgmt-datalake-store, py-azure-mgmt-datamigration, py-azure-mgmt-deploymentmanager, py-azure-mgmt-devtestlabs, py-azure-mgmt-dns, py-azure-mgmt-eventgrid, py-azure-mgmt-eventhub, py-azure-mgmt-hdinsight, py-azure-mgmt-imagebuilder, py-azure-mgmt-iotcentral, py-azure-mgmt-iothub, py-azure-mgmt-iothubprovisioningservices, py-azure-mgmt-keyvault, py-azure-mgmt-kusto, py-azure-mgmt-loganalytics, py-azure-mgmt-managedservices, py-azure-mgmt-managementgroups, py-azure-mgmt-maps, py-azure-mgmt-marketplaceordering, py-azure-mgmt-media, py-azure-mgmt-monitor, py-azure-mgmt-msi, py-azure-mgmt-netapp, py-azure-mgmt-network, py-azure-mgmt-policyinsights, py-azure-mgmt-privatedns, py-azure-mgmt-rdbms, py-azure-mgmt-recoveryservices, py-azure-mgmt-recoveryservicesbackup, py-azure-mgmt-redhatopenshift, py-azure-mgmt-redis, py-azure-mgmt-relay, py-azure-mgmt-reservations, py-azure-mgmt-search, py-azure-mgmt-security, py-azure-mgmt-servicebus, py-azure-mgmt-servicefabric, py-azure-mgmt-signalr, py-azure-mgmt-sql, py-azure-mgmt-sqlvirtualmachine, py-azure-mgmt-storage, py-azure-mgmt-trafficmanager, py-azure-mgmt-web, py-azure-multiapi-storage, py-azure-loganalytics, py-azure-storage-common, py-cryptography, py-fabric, py-jsmin, py-pytz, py-scp, py-sshtunnel, py-urllib3, py-vsts-cd-manager, py-websocket-client, py-xmltodict, py-javaproperties, py-jsondiff
Description:
Microsoft Azure Command-Line Tools.

py-azure-cli-command-modules-nspkg

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-cli-nspkg
Run Dependencies:
python, py-azure-cli-nspkg
Description:
Microsoft Azure CLI Command Modules Namespace Package.

py-azure-cli-nspkg

Homepage:
Spack package:
Versions:
3.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-nspkg
Run Dependencies:
python, py-azure-nspkg
Description:
Microsoft Azure CLI Namespace Package.

py-azure-cli-telemetry

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-applicationinsights, py-portalocker
Run Dependencies:
python, py-applicationinsights, py-portalocker
Description:
Microsoft Azure CLI Telemetry Package.

py-azure-common

Homepage:
Spack package:
Versions:
1.1.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-nspkg
Run Dependencies:
python, py-azure-nspkg
Description:
Microsoft Azure Client Library for Python (Common).

py-azure-core

Homepage:
Spack package:
Versions:
1.21.1, 1.7.0, 1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-six, py-azure-nspkg, py-enum34, py-typing
Run Dependencies:
python, py-requests, py-six, py-azure-nspkg, py-enum34, py-typing
Description:
Microsoft Azure Core Library for Python.

py-azure-cosmos

Homepage:
Spack package:
Versions:
4.0.0, 3.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-azure-core, py-enum34, py-azure-nspkg, py-typing, py-requests
Run Dependencies:
python, py-six, py-azure-core, py-enum34, py-azure-nspkg, py-typing, py-requests
Description:
Microsoft Azure Cosmos Client Library for Python.

py-azure-datalake-store

Homepage:
Spack package:
Versions:
0.0.48
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi, py-adal, py-requests, py-pathlib2, py-futures, py-azure-nspkg
Run Dependencies:
python, py-cffi, py-adal, py-requests, py-pathlib2, py-futures, py-azure-nspkg
Description:
Azure Data Lake Store Filesystem Client Library for Python.

py-azure-functions-devops-build

Homepage:
Spack package:
Versions:
0.0.22
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-vsts, py-jinja2
Run Dependencies:
python, py-msrest, py-vsts, py-jinja2
Description:
Python package for integrating Azure Functions with Azure DevOps. Specifically made for the Azure CLI.

py-azure-graphrbac

Homepage:
Spack package:
Versions:
0.61.1, 0.60.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-nspkg
Description:
Microsoft Azure Graph RBAC Client Library for Python.

py-azure-keyvault-certificates

Homepage:
Spack package:
Versions:
4.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-core, py-msrest, py-azure-keyvault-nspkg, py-enum34, py-typing
Run Dependencies:
python, py-azure-core, py-msrest, py-azure-keyvault-nspkg, py-enum34, py-typing
Description:
Microsoft Azure Key Vault Certificates Client Library for Python.

py-azure-keyvault-nspkg

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-nspkg
Run Dependencies:
python, py-azure-nspkg
Description:
Microsoft Azure Key Vault Namespace Package.

py-azure-keyvault-secrets

Homepage:
Spack package:
Versions:
4.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-core, py-msrest, py-azure-keyvault-nspkg, py-enum34, py-typing
Run Dependencies:
python, py-azure-core, py-msrest, py-azure-keyvault-nspkg, py-enum34, py-typing
Description:
Microsoft Azure Key Vault Secrets Client Library for Python.

py-azure-loganalytics

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-azure-common
Run Dependencies:
python, py-msrest, py-azure-common
Description:
Microsoft Azure Log Analytics Client Library for Python.

py-azure-mgmt-advisor

Homepage:
Spack package:
Versions:
4.0.0, 2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Advisor Client Library for Python.

py-azure-mgmt-apimanagement

Homepage:
Spack package:
Versions:
0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure API Management Client Library for Python.

py-azure-mgmt-appconfiguration

Homepage:
Spack package:
Versions:
0.5.0, 0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure App Configuration Management Client Library for Python.

py-azure-mgmt-applicationinsights

Homepage:
Spack package:
Versions:
0.3.0, 0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Application Insights Management Client Library for Python.

py-azure-mgmt-authorization

Homepage:
Spack package:
Versions:
0.60.0, 0.52.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Authorization Management Client Library for Python.

py-azure-mgmt-batch

Homepage:
Spack package:
Versions:
9.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Batch Management Client Library for Python.

py-azure-mgmt-batchai

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure Batch AI Management Client Library for Python.

py-azure-mgmt-billing

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure Billing Client Library for Python.

py-azure-mgmt-botservice

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Bot Service Client Library for Python.

py-azure-mgmt-cdn

Homepage:
Spack package:
Versions:
4.1.0rc1, 4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure CDN Management Client Library for Python.

py-azure-mgmt-cognitiveservices

Homepage:
Spack package:
Versions:
6.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Cognitive Services Management Client Library for Python.

py-azure-mgmt-compute

Homepage:
Spack package:
Versions:
13.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Compute Management Client Library for Python.

py-azure-mgmt-consumption

Homepage:
Spack package:
Versions:
3.0.0, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Consumption Client Library for Python.

py-azure-mgmt-containerinstance

Homepage:
Spack package:
Versions:
2.0.0, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Container Instance Client Library for Python.

py-azure-mgmt-containerregistry

Homepage:
Spack package:
Versions:
3.0.0rc14, 2.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Container Registry Client Library for Python.

py-azure-mgmt-containerservice

Homepage:
Spack package:
Versions:
9.2.0, 9.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Container Service Management Client Library for Python.

py-azure-mgmt-core

Homepage:
Spack package:
Versions:
1.2.0, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-core, py-azure-mgmt-nspkg, py-typing
Run Dependencies:
python, py-azure-core, py-azure-mgmt-nspkg, py-typing
Description:
Microsoft Azure Management Core Library for Python.

py-azure-mgmt-cosmosdb

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Cosmos DB Management Client Library for Python.

py-azure-mgmt-datalake-analytics

Homepage:
Spack package:
Versions:
0.6.0, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure Data Lake Analytics Management Client Library for Python.

py-azure-mgmt-datalake-store

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure Data Lake Store Management Client Library for Python.

py-azure-mgmt-datamigration

Homepage:
Spack package:
Versions:
4.0.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Data Migration Client Library for Python.

py-azure-mgmt-deploymentmanager

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Deployment Manager Client Library for Python.

py-azure-mgmt-devtestlabs

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure DevTestLabs Management Client Library for Python.

py-azure-mgmt-dns

Homepage:
Spack package:
Versions:
3.0.0, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure DNS Management Client Library for Python.

py-azure-mgmt-eventgrid

Homepage:
Spack package:
Versions:
3.0.0rc7, 2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure EventGrid Management Client Library for Python.

py-azure-mgmt-eventhub

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure EventHub Management Client Library for Python.

py-azure-mgmt-hdinsight

Homepage:
Spack package:
Versions:
1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure HDInsight Management Client Library for Python.

py-azure-mgmt-imagebuilder

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Image Builder Client Library for Python.

py-azure-mgmt-iotcentral

Homepage:
Spack package:
Versions:
3.1.0, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure IoTCentral Management Client Library for Python.

py-azure-mgmt-iothub

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure IoTHub Management Client Library for Python.

py-azure-mgmt-iothubprovisioningservices

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure IoTHub Provisioning Services Client Library for Python.

py-azure-mgmt-keyvault

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Key Vault Management Client Library for Python.

py-azure-mgmt-kusto

Homepage:
Spack package:
Versions:
0.9.0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Kusto Management Client Library for Python.

py-azure-mgmt-loganalytics

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Log Analytics Management Client Library for Python.

py-azure-mgmt-managedservices

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Managed Services Client Library for Python.

py-azure-mgmt-managementgroups

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Management Groups Client Library for Python.

py-azure-mgmt-maps

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrestazure, py-azure-common
Run Dependencies:
python, py-msrestazure, py-azure-common
Description:
Microsoft Azure Maps Client Library for Python.

py-azure-mgmt-marketplaceordering

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Market Place Ordering Client Library for Python.

py-azure-mgmt-media

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Media Services Client Library for Python.

py-azure-mgmt-monitor

Homepage:
Spack package:
Versions:
0.11.0, 0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Monitor Client Library for Python.

py-azure-mgmt-msi

Homepage:
Spack package:
Versions:
1.0.0, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure MSI Management Client Library for Python.

py-azure-mgmt-netapp

Homepage:
Spack package:
Versions:
0.11.0, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure NetApp Files Management Client Library for Python.

py-azure-mgmt-network

Homepage:
Spack package:
Versions:
11.0.0, 10.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Network Management Client Library for Python.

py-azure-mgmt-nspkg

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-nspkg
Run Dependencies:
python, py-azure-nspkg
Description:
Microsoft Azure Resource Management Namespace Package [Internal].

py-azure-mgmt-policyinsights

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Policy Insights Client Library for Python.

py-azure-mgmt-privatedns

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure DNS Private Zones Client Library for Python.

py-azure-mgmt-rdbms

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure RDBMS Management Client Library for Python.

py-azure-mgmt-recoveryservices

Homepage:
Spack package:
Versions:
0.5.0, 0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Recovery Services Client Library for Python.

py-azure-mgmt-recoveryservicesbackup

Homepage:
Spack package:
Versions:
0.8.0, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Recovery Services Backup Management Client Library for Python.

py-azure-mgmt-redhatopenshift

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Red Hat Openshift Management Client Library for Python.

py-azure-mgmt-redis

Homepage:
Spack package:
Versions:
7.0.0rc1, 6.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Redis Cache Management Client Library for Python.

py-azure-mgmt-relay

Homepage:
Spack package:
Versions:
0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Relay Client Library for Python.

py-azure-mgmt-reservations

Homepage:
Spack package:
Versions:
0.7.0, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Reservations Client Library for Python.

py-azure-mgmt-resource

Homepage:
Spack package:
Versions:
10.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Resource Management Client Library for Python.

py-azure-mgmt-security

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Security Center Management Client Library for Python.

py-azure-mgmt-servicebus

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Service Bus Management Client Library for Python.

py-azure-mgmt-servicefabric

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Service Fabric Management Client Library for Python.

py-azure-mgmt-signalr

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure SignalR Client Library for Python.

py-azure-mgmt-sql

Homepage:
Spack package:
Versions:
0.19.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure SQL Management Client Library for Python.

py-azure-mgmt-sqlvirtualmachine

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure SQL Virtual Machine Management Client Library for Python.

py-azure-mgmt-storage

Homepage:
Spack package:
Versions:
11.1.0, 11.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Storage Management Client Library for Python.

py-azure-mgmt-trafficmanager

Homepage:
Spack package:
Versions:
0.51.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Traffic Manager Client Library for Python.

py-azure-mgmt-web

Homepage:
Spack package:
Versions:
0.47.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Run Dependencies:
python, py-msrest, py-msrestazure, py-azure-common, py-azure-mgmt-nspkg
Description:
Microsoft Azure Web Apps Management Client Library for Python.

py-azure-multiapi-storage

Homepage:
Spack package:
Versions:
0.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-common, py-cryptography, py-python-dateutil, py-requests, py-azure-core, py-futures, py-azure-nspkg
Run Dependencies:
python, py-azure-common, py-cryptography, py-python-dateutil, py-requests, py-azure-core, py-futures, py-azure-nspkg
Description:
Microsoft Azure Storage Client Library for Python with multi API version support.

py-azure-nspkg

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Microsoft Azure Namespace Package [Internal].

py-azure-storage-blob

Homepage:
Spack package:
Versions:
12.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-core, py-msrest, py-cryptography, py-futures, py-azure-storage-nspkg, py-enum34, py-typing
Run Dependencies:
python, py-azure-core, py-msrest, py-cryptography, py-futures, py-azure-storage-nspkg, py-enum34, py-typing
Description:
Microsoft Azure Blob Storage Client Library for Python

py-azure-storage-common

Homepage:
Spack package:
Versions:
2.1.0, 1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-common, py-cryptography, py-python-dateutil, py-requests, py-azure-storage-nspkg
Run Dependencies:
python, py-azure-common, py-cryptography, py-python-dateutil, py-requests, py-azure-storage-nspkg
Description:
Microsoft Azure Storage Common Client Library for Python.

py-azure-storage-nspkg

Homepage:
Spack package:
Versions:
3.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-azure-nspkg
Run Dependencies:
python, py-azure-nspkg
Description:
Microsoft Azure Storage Namespace Package.

py-azureml-automl-core

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-dataset-runtime, py-azureml-telemetry, py-azureml-dataprep
Run Dependencies:
python, py-azureml-dataset-runtime, py-azureml-telemetry, py-azureml-dataprep
Description:
The azureml-automl-core package is a package containing functionality used by the azureml-train-automl package.

py-azureml-dataprep-native

Homepage:
Spack package:
Versions:
30.0.0-py3.9, 30.0.0-py3.8, 30.0.0-py3.7, 30.0.0-py3.6, 30.0.0-py3.5, 14.2.1-py3.7
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Python Package for AzureML DataPrep specific native extensions.

py-azureml-dataprep-rslex

Homepage:
Spack package:
Versions:
1.9.0-py3.9, 1.9.0-py3.8, 1.9.0-py3.7, 1.9.0-py3.6, 1.9.0-py3.5, 1.8.0-py3.9, 1.8.0-py3.8, 1.8.0-py3.7, 1.8.0-py3.6, 1.8.0-py3.5
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Azure Machine Learning Data Prep RsLex is a Rust implementation of Data Prep's capabilities to load, transform, and write data for machine learning workflows.

py-azureml-dataset-runtime

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0.post1
Build Dependencies:
python, py-pip, py-wheel, py-azureml-dataprep, py-pyarrow, py-numpy, py-fusepy
Run Dependencies:
python, py-azureml-dataprep, py-pyarrow, py-numpy, py-fusepy
Description:
The purpose of this package is to coordinate dependencies within AzureML packages. It is not intended for public use.

py-azureml-pipeline

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-pipeline-core, py-azureml-pipeline-steps
Run Dependencies:
python, py-azureml-pipeline-core, py-azureml-pipeline-steps
Description:
The Azure Machine Learning SDK for Python can be used to create ML pipelines as well as to submit and track individual pipeline runs.

py-azureml-pipeline-core

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-core
Run Dependencies:
python, py-azureml-core
Description:
Core functionality to enable azureml-pipeline feature.

py-azureml-pipeline-steps

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-train-core, py-azureml-train-automl-client, py-azureml-pipeline-core
Run Dependencies:
python, py-azureml-train-core, py-azureml-train-automl-client, py-azureml-pipeline-core
Description:
Represents a unit of computation in azureml-pipeline.

py-azureml-telemetry

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-applicationinsights, py-azureml-core
Run Dependencies:
python, py-applicationinsights, py-azureml-core
Description:
Machine learning (ML) telemetry package is used to collect telemetry data.

py-azureml-train

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-train-core
Run Dependencies:
python, py-azureml-train-core
Description:
The azureml-train package provides estimators for training models using different deep learning frameworks and functionality for hyperparameter tuning using Azure cloud.

py-azureml-train-automl-client

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-automl-core, py-azureml-core, py-azureml-dataset-runtime, py-azureml-telemetry, py-azureml-dataprep
Run Dependencies:
python, py-azureml-automl-core, py-azureml-core, py-azureml-dataset-runtime, py-azureml-telemetry, py-azureml-dataprep
Description:
The azureml-train-automl-client package contains functionality for automatically finding the best machine learning model and its parameters, given training and test data.

py-azureml-train-core

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-azureml-train-restclients-hyperdrive, py-azureml-core, py-azureml-telemetry, py-flake8
Run Dependencies:
python, py-azureml-train-restclients-hyperdrive, py-azureml-core, py-azureml-telemetry, py-flake8
Description:
The azureml-train-core contains functionality used by azureml-train metapackage.

py-azureml-train-restclients-hyperdrive

Homepage:
Spack package:
Versions:
1.23.0, 1.11.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-requests, py-msrest, py-msrestazure
Run Dependencies:
python, py-requests, py-msrest, py-msrestazure
Description:
The azureml-train-restclients-hyperdrive contains functionality for azureml-train metapackage.

py-babel

Homepage:
Spack package:
Versions:
2.9.1, 2.7.0, 2.6.0, 2.4.0, 2.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz
Run Dependencies:
python, py-setuptools, py-pytz
Description:
Babel is an integrated collection of utilities that assist in internationalizing and localizing Python applications, with an emphasis on web-based applications.

py-backcall

Homepage:
Spack package:
Versions:
0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core
Run Dependencies:
python
Description:
Specifications for callback functions passed in to an API

py-backports-abc

Homepage:
Spack package:
Versions:
0.5, 0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Backports_ABC: A backport of recent additions to the 'collections.abc' module.

py-backports-entry-points-selectable

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
Compatibility shim providing selectable entry points for older implementations

py-backports-functools-lru-cache

Homepage:
Spack package:
Versions:
1.5, 1.4, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Backport of functools.lru_cache from Python 3.3

py-backports-lzma

Homepage:
Spack package:
Versions:
0.0.14, 0.0.13, 0.0.12, 0.0.11, 0.0.10, 0.0.9, 0.0.8, 0.0.7, 0.0.6, 0.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Backport of Python 3.3's standard library module lzma for LZMA/XY compressed files.

py-backports-os

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-future
Run Dependencies:
python, py-future
Description:
Backport of new features in Python's os module

py-backports-shutil-get-terminal-size

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
A backport of the get_terminal_size function from Python 3.3's shutil.

py-backports-ssl-match-hostname

Homepage:
Spack package:
Versions:
3.5.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The ssl.match_hostname() function from Python 3.5

py-backports-tempfile

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-weakref
Run Dependencies:
python, py-backports-weakref
Description:
This package provides backports of new features in Python's tempfile module under the backports namespace

py-backports-weakref

Homepage:
Spack package:
Versions:
1.0rc1, 1.0.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Backports of new features in Python's weakref module

py-bandit

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-gitpython, py-pyyaml, py-six, py-stevedore, py-colorama
Run Dependencies:
python, py-gitpython, py-pyyaml, py-six, py-stevedore, py-colorama
Description:
Security oriented static analyser for python code.

py-basemap

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-matplotlib, py-pyproj, py-pyshp, py-six, pil, geos
Link Dependencies:
geos
Run Dependencies:
python, py-setuptools, py-numpy, py-matplotlib, py-pyproj, py-pyshp, py-six, pil
Description:
The matplotlib basemap toolkit is a library for plotting 2D data on maps in Python.

py-bash-kernel

Homepage:
Spack package:
Versions:
0.7.2
Build Dependencies:
python, py-pip, py-wheel, py-flit, py-pexpect
Run Dependencies:
python, py-pexpect
Description:
A Jupyter kernel for bash.

py-basis-set-exchange

Homepage:
Spack package:
Versions:
0.8.12, 0.8.11, 0.8.10, 0.8.9, 0.8.8, 0.8.7, 0.8.6, 0.8.5, 0.8.4, 0.8.3
Build Dependencies:
python, py-pip, py-wheel, py-argcomplete, py-jsonschema, py-setuptools
Run Dependencies:
python, py-argcomplete, py-jsonschema
Description:
Command-line interface for the Basis Set Exchange Website

py-batchspawner

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-async-generator, py-jinja2, py-jupyterhub
Run Dependencies:
python, py-async-generator, py-jinja2, py-jupyterhub
Description:
This is a custom spawner for Jupyterhub that is designed for installations on clusters using batch scheduling software.

py-bayesian-optimization

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn
Description:
Pure Python implementation of bayesian global optimization with gaussian processes.

py-bcbio-gff

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-biopython
Run Dependencies:
python, py-six, py-biopython
Description:
Read and write Generic Feature Format (GFF) with Biopython integration.

py-bcolz

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools, py-setuptools-scm, py-cython
Run Dependencies:
python, py-numpy
Description:
bcolz provides columnar and compressed data containers. Column storage allows for efficiently querying tables with a large number of columns. It also allows for cheap addition and removal of column. In addition, bcolz objects are compressed by default for reducing memory/disk I/O needs. The compression process is carried out internally by Blosc, a high-performance compressor that is optimized for binary data.

py-bcrypt

Homepage:
Spack package:
Versions:
3.2.0, 3.1.7, 3.1.6, 3.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi, py-six
Run Dependencies:
python, py-cffi, py-six
Description:
Modern password hashing for your software and your servers

py-beancount

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-bottle, py-lxml, py-ply, py-python-dateutil, py-python-magic, py-beautifulsoup4, py-requests, py-chardet, py-google-api-python-client
Run Dependencies:
python, py-bottle, py-lxml, py-ply, py-python-dateutil, py-python-magic, py-beautifulsoup4, py-requests, py-chardet, py-google-api-python-client
Description:
A double-entry bookkeeping computer language that lets you define financial transaction records in a text file, read them in memory, generate a variety of reports from them, and provides a web interface..

py-beautifulsoup4

Homepage:
Spack package:
Versions:
4.10.0, 4.9.3, 4.8.0, 4.5.3, 4.5.1, 4.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-soupsieve, py-lxml, py-html5lib
Run Dependencies:
python, py-soupsieve, py-lxml, py-html5lib
Description:
Beautiful Soup is a Python library for pulling data out of HTML and XML files. It works with your favorite parser to provide idiomatic ways of navigating, searching, and modifying the parse tree.

py-beniget

Homepage:
Spack package:
Versions:
0.4.1, 0.4.0, 0.3.0, 0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-gast
Run Dependencies:
python, py-gast
Description:
Extract semantic information about static Python code.

py-bids-validator

Homepage:
Spack package:
Versions:
1.8.9, 1.8.4, 1.7.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Validator for the Brain Imaging Data Structure

py-bigdft

Homepage:
Spack package:
Versions:
develop, 1.9.2, 1.9.1, 1.9.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Link Dependencies:
py-numpy, py-setuptools
Run Dependencies:
python, bigdft-futile
Description:
BigDFT: the python interface of BigDFT for electronic structure calculation based on Daubechies wavelets.

py-bigfloat

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, mpfr
Link Dependencies:
gmp, mpfr
Run Dependencies:
python, py-six
Description:
Arbitrary-precision correctly-rounded floating-point arithmetic, via MPFR.

py-billiard

Homepage:
Spack package:
Versions:
3.6.4.0, 3.6.3.0, 3.6.1.0, 3.6.0.0, 3.5.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python multiprocessing fork with improvements and bugfixes

py-binaryornot

Homepage:
Spack package:
Versions:
0.4.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-chardet
Link Dependencies:
py-chardet
Run Dependencies:
python
Description:
Ultra-lightweight pure Python package to check if a file is binary or text.

py-bintrees

Homepage:
Spack package:
Versions:
2.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Package provides Binary-, RedBlack- and AVL-Trees in Python and Cython.

py-binwalk

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Binwalk is a fast, easy to use tool for analyzing, reverse engineering, and extracting firmware images.

py-biom-format

Homepage:
Spack package:
Versions:
2.1.10, 2.1.9, 2.1.7, 2.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-h5py, py-click, py-numpy, py-future, py-scipy, py-pandas, py-six, py-pyqi
Run Dependencies:
python, py-setuptools, py-h5py, py-click, py-numpy, py-future, py-scipy, py-pandas, py-six, py-pyqi
Description:
The BIOM file format (canonically pronounced biome) is designed to be a general-use format for representing biological sample by observation contingency tables.

py-biomine

Homepage:
Spack package:
Versions:
0.9.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-advancedhtmlparser, py-pysam, py-pyvcf, py-requests
Run Dependencies:
python, py-advancedhtmlparser, py-pysam, py-pyvcf, py-requests
Description:
Bioinformatics data-mining.

py-biopandas

Homepage:
Spack package:
Versions:
0.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pandas, py-numpy
Run Dependencies:
python, py-pandas, py-numpy
Description:
Working with molecular structures in pandas DataFrames

py-biopython

Homepage:
Spack package:
Versions:
1.78, 1.73, 1.70, 1.65
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
A distributed collaborative effort to develop Python libraries and applications which address the needs of current and future work in bioinformatics.

py-bitarray

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Efficient array of booleans - C extension

py-bitstring

Homepage:
Spack package:
Versions:
3.1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple construction, analysis and modification of binary data.

py-black

Homepage:
Spack package:
Versions:
22.1.0, 21.7b0, 21.6b0, 21.4b0, 20.8b1, 19.3b0, 18.9b0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-click, py-attrs, py-platformdirs, py-appdirs, py-toml, py-tomli, py-typed-ast, py-regex, py-pathspec, py-dataclasses, py-typing-extensions, py-mypy-extensions, py-colorama, py-aiohttp, py-aiohttp-cors
Run Dependencies:
python, py-setuptools, py-click, py-attrs, py-platformdirs, py-appdirs, py-toml, py-tomli, py-typed-ast, py-regex, py-pathspec, py-dataclasses, py-typing-extensions, py-mypy-extensions, py-colorama, py-aiohttp, py-aiohttp-cors
Description:
Black is the uncompromising Python code formatter. By using it, you agree to cede control over minutiae of hand-formatting. In return, Black gives you speed, determinism, and freedom from pycodestyle nagging about formatting.

py-bleach

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.3.1, 3.1.0, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-webencodings, py-packaging
Run Dependencies:
python, py-setuptools, py-six, py-webencodings, py-packaging
Description:
An easy whitelist-based HTML-sanitizing tool.

py-blessed

Homepage:
Spack package:
Versions:
1.19.0, 1.18.1, 1.18.0, 1.17.12, 1.17.11, 1.17.10, 1.17.9, 1.17.8, 1.17.7, 1.17.6, 1.17.5, 1.17.4, 1.17.3, 1.17.0, 1.16.1, 1.16.0, 1.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-wcwidth, py-six
Run Dependencies:
python, py-wcwidth, py-six
Description:
Blessed is a thin, practical wrapper around terminal capabilities in Python.

py-blessings

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A nicer, kinder way to write to the terminal

py-blinker

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Fast, simple object-to-object and broadcast signaling

py-blis

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Cython BLIS: Fast BLAS-like operations from Python and Cython, without the tears

py-blosc

Homepage:
Spack package:
Versions:
1.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scikit-build, py-cmake, py-ninja
Run Dependencies:
python
Description:
A Python wrapper for the extremely fast Blosc compression library

py-bmap-tools

Homepage:
Spack package:
Versions:
3.5, 3.4, 3.2, 3.1, 3.0, 2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Bmaptool is a generic tool for creating the block map (bmap) for a file and copying files using the block map. The idea is that large files, like raw system image files, can be copied or flashed a lot faster and more reliably with bmaptool than with traditional tools, like "dd" or "cp".

py-bokeh

Homepage:
Spack package:
Versions:
2.4.1, 2.4.0, 2.3.3, 1.3.4, 0.12.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-packaging, py-six, py-pyyaml, py-python-dateutil, py-futures, pil, py-jinja2, py-numpy, py-tornado, py-typing-extensions
Run Dependencies:
python, py-requests, py-packaging, py-six, py-pyyaml, py-python-dateutil, py-futures, pil, py-jinja2, py-numpy, py-tornado, py-typing-extensions
Description:
Statistical and novel interactive HTML plots for Python

py-boltons

Homepage:
Spack package:
Versions:
16.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
When they're not builtins, they're boltons. Functionality that should be in the standard library. Like builtins, but Boltons. Otherwise known as, "everyone's util.py," but cleaned up and tested.

py-boom-boot-manager

Homepage:
Spack package:
Versions:
1.2, 1.1, 1.0, 0.9, 0.8.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Boom is a boot manager for Linux systems using boot loaders that support the BootLoader Specification for boot entry configuration.

py-boost-histogram

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-numpy, py-dataclasses, py-typing-extensions
Run Dependencies:
python, py-numpy, py-dataclasses, py-typing-extensions
Description:
The Boost::Histogram Python wrapper.

py-boto

Homepage:
Spack package:
Versions:
2.49.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Boto is a Python package that provides interfaces to Amazon Web Services.

py-boto3

Homepage:
Spack package:
Versions:
1.18.12, 1.17.27, 1.10.44, 1.10.38, 1.9.169
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-botocore, py-jmespath, py-s3transfer
Run Dependencies:
python, py-botocore, py-jmespath, py-s3transfer
Description:
The AWS SDK for Python.

py-botocore

Homepage:
Spack package:
Versions:
1.21.12, 1.20.27, 1.19.52, 1.13.44, 1.13.38, 1.12.169
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jmespath, py-docutils, py-ordereddict, py-simplejson, py-python-dateutil, py-urllib3
Run Dependencies:
python, py-jmespath, py-docutils, py-ordereddict, py-simplejson, py-python-dateutil, py-urllib3
Description:
Low-level, data-driven core of boto 3.

py-bottle

Homepage:
Spack package:
Versions:
0.12.19, 0.12.18, 0.12.17, 0.12.16, 0.12.15, 0.12.14, 0.12.13, 0.12.12, 0.12.11, 0.12.10, 0.12.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Bottle is a fast, simple and lightweight WSGI micro web-framework for Python.

py-bottleneck

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3.0, 1.2.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
A collection of fast NumPy array functions written in Cython.

py-breakseq2

Homepage:
Spack package:
Versions:
2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-biopython, py-cython, py-pysam
Run Dependencies:
python, py-biopython, py-pysam, bwa, samtools
Description:
nucleotide-resolution analysis of structural variants

py-breathe

Homepage:
Spack package:
Versions:
4.21.0, 4.11.1, 4.11.0, 4.10.0, 4.9.1, 4.9.0, 4.8.0, 4.7.3, 4.7.2, 4.7.1, 4.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-docutils, py-six, doxygen
Link Dependencies:
doxygen
Run Dependencies:
python, py-sphinx, py-docutils, py-six
Description:
This is an extension to reStructuredText and Sphinx to be able to read and render the Doxygen xml output.

py-brian

Homepage:
Spack package:
Versions:
1.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy, py-scipy
Run Dependencies:
python, py-matplotlib, py-numpy, py-scipy
Description:
A clock-driven simulator for spiking neural networks

py-brian2

Homepage:
Spack package:
Versions:
2.5.0.2, 2.5.0.1, 2.4.2, 2.2.2.1, 2.0.1, 2.0rc3
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-cython, py-sympy, py-pyparsing, py-jinja2, py-setuptools
Run Dependencies:
python, py-numpy, py-cython, py-sympy, py-pyparsing, py-jinja2, py-setuptools
Description:
A clock-driven simulator for spiking neural networks

py-brotlipy

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi, py-enum34
Run Dependencies:
python, py-cffi, py-enum34
Description:
Python binding to the Brotli library.

py-bsddb3

Homepage:
Spack package:
Versions:
6.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, berkeley-db
Link Dependencies:
python, berkeley-db
Run Dependencies:
python
Description:
This module provides a nearly complete wrapping of the Oracle/Sleepycat C API for the Database Environment, Database, Cursor, Log Cursor, Sequence and Transaction objects, and each of these is exposed as a Python type in the bsddb3.db module.

py-build

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging, py-pep517, py-tomli, py-colorama, py-importlib-metadata, py-virtualenv
Run Dependencies:
python, py-packaging, py-pep517, py-tomli, py-colorama, py-importlib-metadata, py-virtualenv
Description:
A simple, correct PEP517 package builder.

py-bx-python

Homepage:
Spack package:
Versions:
0.8.8, 0.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-lzo, py-cython, py-numpy, py-six
Run Dependencies:
python, py-python-lzo, py-numpy, py-six
Description:
The bx-python project is a python library and associated set of scripts to allow for rapid implementation of genome scale analyses.

py-bz2file

Homepage:
Spack package:
Versions:
0.98
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python library for reading and writing bzip2-compressed files.

py-cachecontrol

Homepage:
Spack package:
Versions:
0.12.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-msgpack
Run Dependencies:
python, py-requests, py-msgpack, py-lockfile
Description:
CacheControl is a port of the caching algorithms in httplib2 for use with requests session object.

py-cached-property

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A decorator for caching properties in classes.

py-cachetools

Homepage:
Spack package:
Versions:
4.2.4, 4.2.2, 3.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This module provides various memoizing collections and decorators, including variants of the Python 3 Standard Library @lru_cache function decorator.

py-cachy

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Cachy provides a simple yet effective caching library.

py-cairocffi

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi
Run Dependencies:
python, py-cffi
Description:
cairocffi is a CFFI-based drop-in replacement for Pycairo, a set of Python bindings and object-oriented API for cairo. Cairo is a 2D vector graphics library with support for multiple backends including image buffers, PNG, PostScript, PDF, and SVG file output.

py-cantoolz

Homepage:
Spack package:
Versions:
3.7.0, 3.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-bitstring, py-flask, py-pyserial, py-mido, py-numpy
Run Dependencies:
python, py-bitstring, py-flask, py-pyserial, py-mido, py-numpy
Description:
CANToolz is a framework for analysing CAN networks and devices. It provides multiple modules that can be chained using CANToolz's pipe system and used by security researchers, automotive/OEM security testers in black-box analysis.

py-carputils

Homepage:
Spack package:
Versions:
master, oc9.0, oc8.2, oc8.1, oc7.0
Build Dependencies:
python, py-pip, py-wheel, git, py-numpy, py-setuptools
Link Dependencies:
git
Run Dependencies:
python, py-numpy, py-python-dateutil, py-scipy, py-matplotlib, py-pandas, py-tables, py-six, py-ruamel-yaml
Description:
The carputils framework for running simulations with the openCARP software.

py-cartopy

Homepage:
Spack package:
Versions:
0.20.2, 0.20.1, 0.20.0, 0.19.0.post1, 0.18.0, 0.17.0, 0.16.0
Build Dependencies:
python, py-pip, py-wheel, geos, proj, py-setuptools, py-cython, py-setuptools-scm, py-setuptools-scm-git-archive, py-numpy, py-matplotlib, py-shapely, py-pyshp, py-pyproj, py-six, py-futures
Link Dependencies:
geos, proj
Run Dependencies:
python, py-numpy, py-matplotlib, py-shapely, py-pyshp, py-pyproj, py-six, py-futures, py-pyepsg, py-owslib, pil, gdal, py-scipy
Description:
Cartopy - a cartographic python library with matplotlib support.

py-catalogue

Homepage:
Spack package:
Versions:
2.0.0, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
catalogue: Super lightweight function registries for your library.

py-catkin-pkg

Homepage:
Spack package:
Versions:
0.4.23
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils, py-python-dateutil, py-pyparsing, py-argparse
Run Dependencies:
python, py-setuptools, py-docutils, py-python-dateutil, py-pyparsing, py-argparse
Description:
Library for retrieving information about catkin packages.

py-cclib

Homepage:
Spack package:
Versions:
1.5.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Open source library for parsing and interpreting the results of computational chemistry packages

py-cdat-lite

Homepage:
Spack package:
Versions:
6.0.1
Build Dependencies:
python, py-pip, py-wheel, netcdf-c, py-numpy, py-setuptools
Link Dependencies:
netcdf-c
Run Dependencies:
python, py-numpy
Description:
Cdat-lite is a Python package for managing and analysing climate science data. It is a subset of the Climate Data Analysis Tools (CDAT) developed by PCMDI at Lawrence Livermore National Laboratory.

py-cdo

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
python, py-pip, py-wheel, cdo, py-setuptools, py-scipy, py-netcdf4
Link Dependencies:
cdo
Run Dependencies:
python, py-scipy, py-netcdf4
Description:
The cdo package provides an interface to the Climate Data Operators from Python.

py-cdsapi

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-tqdm
Run Dependencies:
python, py-requests, py-tqdm
Description:
The Climate Data Store Application Program Interface is a service providing programmatic access to CDS data. Get your UID and API key from the CDS portal at the address https://cds.climate.copernicus.eu/user and write it into the configuration file. Look at https://pypi.org/project/cdsapi/ for an example

py-cekit

Homepage:
Spack package:
Versions:
3.7.0, 3.6.0, 3.5.0, 3.4.0, 3.3.2, 3.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-jinja2, py-pykwalify, py-colorlog, py-click, py-packaging
Run Dependencies:
python, py-pyyaml, py-jinja2, py-pykwalify, py-colorlog, py-click, py-packaging
Description:
CEKit is a Container image creation tool. CEKit helps to build container images from image definition files with strong focus on modularity and code reuse.

py-cerberus

Homepage:
Spack package:
Versions:
1.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Lightweight, extensible schema and data validation tool for Python dictionaries

py-certifi

Homepage:
Spack package:
Versions:
2021.10.8, 2020.6.20, 2020.4.5.1, 2019.9.11, 2019.6.16, 2019.3.9, 2017.4.17, 2017.1.23
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Certifi: A carefully curated collection of Root Certificates for validating the trustworthiness of SSL certificates while verifying the identity of TLS hosts.

py-certipy

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyopenssl
Run Dependencies:
python, py-pyopenssl
Description:
A simple python tool for creating certificate authorities and certificates on the fly.

py-cf-units

Homepage:
Spack package:
Versions:
master, 2.1.4, 2.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-cftime, py-cython, py-numpy, py-antlr4-python3-runtime, py-pytest-runner, udunits
Link Dependencies:
udunits
Run Dependencies:
python, py-six, py-cftime, py-cython, py-numpy, py-antlr4-python3-runtime
Description:
Units of measure as required by the Climate and Forecast (CF) metadata conventions.

py-cffconvert

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click, py-requests, py-ruamel-yaml, py-pykwalify, py-jsonschema
Run Dependencies:
python, py-click, py-requests, py-ruamel-yaml, py-pykwalify, py-jsonschema
Description:
Command line program to validate and convert CITATION.cff files.

py-cffi

Homepage:
Spack package:
Versions:
1.15.0, 1.14.6, 1.14.3, 1.13.0, 1.12.2, 1.11.5, 1.10.0, 1.1.2
Build Dependencies:
python, py-pip, py-wheel, pkgconfig, py-setuptools, py-pycparser, libffi
Link Dependencies:
libffi
Run Dependencies:
python, py-pycparser
Description:
Foreign Function Interface for Python calling C code

py-cfgrib

Homepage:
Spack package:
Versions:
0.9.9.0, 0.9.8.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-attrs, py-cffi, py-click, py-eccodes, py-numpy, py-xarray
Run Dependencies:
python, py-attrs, py-cffi, py-click, py-eccodes, py-numpy, py-xarray
Description:
Python interface to map GRIB files to the NetCDF Common Data Model following the CF Convention using ecCodes.

py-cfgv

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Validate configuration and produce human readable error messages.

py-cftime

Homepage:
Spack package:
Versions:
1.0.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy
Run Dependencies:
python, py-numpy
Description:
Python library for decoding time units and variable values in a netCDF file conforming to the Climate and Forecasting (CF) netCDF conventions

py-chai

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Chai - Python Mocking Made Easy

py-chainer

Homepage:
Spack package:
Versions:
7.2.0, 6.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-six, py-typing-extensions, py-filelock, py-protobuf, py-typing, py-matplotlib, py-mpi4py, mpi
Run Dependencies:
python, py-setuptools, py-numpy, py-six, py-typing-extensions, py-filelock, py-protobuf, py-typing, py-matplotlib, py-mpi4py, mpi
Description:
Chainer is a Python-based deep learning framework aiming at flexibility. It provides automatic differentiation APIs based on the define-by-run approach (a.k.a. dynamic computational graphs) as well as object-oriented high-level APIs to build and train neural networks. It also supports CUDA/cuDNN using CuPy for high performance training and inference.

py-chainmap

Homepage:
Spack package:
Versions:
1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Clone/backport of ChainMap for Python 2.6, Python 3.2, and PyPy3 based on Python 3.2--versions that currently lack their own ChainMap implementations.

py-chalice

Homepage:
Spack package:
Versions:
1.20.0, 1.19.0, 1.18.1, 1.18.0, 1.17.0, 1.16.0, 1.15.1, 1.15.0, 1.14.1, 1.14.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click, py-botocore, py-typing, py-mypy-extensions, py-six, py-attrs, py-enum34, py-jmespath, py-pyyaml
Run Dependencies:
python, py-pip, py-wheel, py-click, py-botocore, py-typing, py-mypy-extensions, py-six, py-attrs, py-enum34, py-jmespath, py-pyyaml
Description:
Python Serverless Microframework for AWS.

py-chardet

Homepage:
Spack package:
Versions:
4.0.0, 3.0.4, 3.0.2, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner
Run Dependencies:
python, py-setuptools
Description:
Universal encoding detector for Python 2 and 3

py-charm4py

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-cffi, py-numpy, py-greenlet, cuda, mpi
Link Dependencies:
cuda, mpi
Run Dependencies:
python, py-numpy, py-greenlet
Description:
Charm4py (Charm++ for Python) is a distributed computing and parallel programming framework for Python, for the productive development of fast, parallel and scalable applications. It is built on top of Charm++, a C++ adaptive runtime system that has seen extensive use in the scientific and high-performance computing (HPC) communities across many disciplines, and has been used to develop applications that run on a wide range of devices: from small multi-core devices up to the largest supercomputers.

py-charset-normalizer

Homepage:
Spack package:
Versions:
2.0.12, 2.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet.

py-checkm-genome

Homepage:
Spack package:
Versions:
1.0.13, 1.0.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, hmmer, pplacer, prodigal, py-backports-functools-lru-cache, py-numpy, py-scipy, py-matplotlib, py-pysam, py-dendropy
Run Dependencies:
python, hmmer, pplacer, prodigal, py-backports-functools-lru-cache, py-numpy, py-scipy, py-matplotlib, py-pysam, py-dendropy
Description:
Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes

py-cheetah

Homepage:
Spack package:
Versions:
2.4.4, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-markdown
Run Dependencies:
python, py-markdown
Description:
Cheetah is a template engine and code generation tool.

py-cheetah3

Homepage:
Spack package:
Versions:
3.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-markdown
Run Dependencies:
python, py-markdown
Description:
Cheetah3 is a template engine and code generation tool.

py-cherrypy

Homepage:
Spack package:
Versions:
18.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-more-itertools, py-zc-lockfile, py-cheroot, py-portend
Run Dependencies:
python, py-more-itertools, py-zc-lockfile, py-cheroot, py-portend
Description:
CherryPy is a pythonic, object-oriented HTTP framework.

py-chronyk

Homepage:
Spack package:
Versions:
1.0.1, 0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A small Python 3 library containing some handy tools for handling time, especially when it comes to interfacing with those pesky humans.

py-ci-info

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Continuous Integration Information. A Python implementation of watson/ci-info. Get details about the current Continuous Integration environment.

py-ci-sdr

Homepage:
Spack package:
Versions:
0.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch, py-numpy, py-scipy, py-einops
Run Dependencies:
python, py-torch, py-numpy, py-scipy, py-einops
Description:
This repository contains an implementation for the Convolutive transfer function Invariant Signal-to-Distortion Ratio objective for PyTorch as described in the publication Convolutive Transfer Function Invariant SDR training criteria for Multi-Channel Reverberant Speech Separation

py-cinema-lib

Homepage:
Spack package:
Versions:
master, 1.2.1, 1.2.0, 1.1.1, 1.1.0, 1.0.2, 1.0.1, 1.0.0, ECPMilestone201806
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scikit-image, opencv, py-setuptools
Run Dependencies:
python, py-numpy, py-scikit-image, opencv, py-setuptools
Description:
cinema_lib is a set of tools and library for interacting with a Cinema database (currently Spec A and Spec D) through Python and the command line tool, cinema.

py-cinemasci

Homepage:
Spack package:
Versions:
1.7.0, 1.3
Build Dependencies:
python, py-pip, py-wheel, hdf5, pil, py-h5py, py-ipywidgets, py-jupyterlab, py-matplotlib, py-pandas, py-pyyaml, py-scikit-image, py-scipy, py-setuptools
Link Dependencies:
hdf5
Run Dependencies:
python, pil, py-h5py, py-ipywidgets, py-jupyterlab, py-matplotlib, py-pandas, py-pyyaml, py-scikit-image, py-scipy
Description:
A set of python tools for reading, writing and viewing Cinema databases

py-citeproc-py

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-rnc2rng, py-lxml
Run Dependencies:
python, py-lxml
Description:
Citations and bibliography formatter.

py-clean-text

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-emoji, py-ftfy
Run Dependencies:
python, py-emoji, py-ftfy
Description:
User-generated content on the Web and in social media is often dirty. Preprocess your scraped data with clean-text to create a normalized text representation.

py-cleo

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-clikit
Run Dependencies:
python, py-clikit
Description:
Cleo allows you to create beautiful and testable command-line interfaces.

py-click

Homepage:
Spack package:
Versions:
8.0.3, 8.0.1, 7.1.2, 7.0, 6.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
Python composable command line interface toolkit.

py-click-didyoumean

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-click, py-setuptools
Run Dependencies:
python, py-click
Description:
Enable git-like did-you-mean feature in click

py-click-plugins

Homepage:
Spack package:
Versions:
1.1.1, 1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click
Run Dependencies:
python, py-click
Description:
An extension module for py-click to register external CLI commands via setuptools entry-points.

py-click-repl

Homepage:
Spack package:
Versions:
0.2.0, 0.1.6
Build Dependencies:
python, py-pip, py-wheel, py-click, py-prompt-toolkit, py-six, py-setuptools
Run Dependencies:
python, py-click, py-prompt-toolkit, py-six
Description:
Subcommand REPL for click apps

py-cligj

Homepage:
Spack package:
Versions:
0.5.0, 0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click
Run Dependencies:
python, py-click
Description:
Click-based argument and option decorators for Python GIS command line programs

py-clikit

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-pastel, py-pylev, py-crashtest, py-typing, py-typing-extensions, py-enum34
Run Dependencies:
python, py-pastel, py-pylev, py-crashtest, py-typing, py-typing-extensions, py-enum34
Description:
CliKit is a group of utilities to build beautiful and testable command line interfaces.

py-climate

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Command line arguments parsing

py-clint

Homepage:
Spack package:
Versions:
0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-args
Run Dependencies:
python, py-args
Description:
Python Command-line Application Tools

py-clipboard

Homepage:
Spack package:
Versions:
0.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyperclip
Run Dependencies:
python, py-pyperclip
Description:
A cross platform clipboard operation library of Python.

py-cloudpickle

Homepage:
Spack package:
Versions:
1.6.0, 1.2.1, 1.1.1, 0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Extended pickling support for Python objects.

py-clustershell

Homepage:
Spack package:
Versions:
1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml
Link Dependencies:
py-pyyaml
Run Dependencies:
python
Description:
Scalable cluster administration Python framework - Manage node sets node groups and execute commands on cluster nodes in parallel.

py-cmake

Homepage:
Spack package:
Versions:
3.22.2, 3.21.4, 3.18.0
Build Dependencies:
python, py-pip, py-wheel, ninja, py-scikit-build, py-setuptools, git, cmake
Link Dependencies:
cmake
Run Dependencies:
python, cmake
Description:
CMake is an open-source, cross-platform family of tools designed to build, test and package software

py-cmake-format

Homepage:
Spack package:
Versions:
0.6.10, 0.6.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-setuptools, py-six
Description:
cmake-format project provides Quality Assurance (QA) tools for cmake. Tools include cmake-annotate, cmake-format, cmake-lint, and ctest-to.

py-cmocean

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy
Run Dependencies:
python, py-matplotlib, py-numpy
Description:
Colormaps for Oceanography.

py-cmsml

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Python package of the CMS Machine Learning Group.

py-cnvkit

Homepage:
Spack package:
Versions:
0.9.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-futures, py-biopython, py-future, py-pomegranate, py-matplotlib, py-numpy, py-pandas, py-pyfaidx, py-pysam, py-reportlab, py-scipy
Run Dependencies:
python, py-futures, py-biopython, py-future, py-pomegranate, py-matplotlib, py-numpy, py-pandas, py-pyfaidx, py-pysam, py-reportlab, py-scipy
Description:
Copy number variation toolkit for high-throughput sequencing.

py-coapthon3

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-cachetools
Run Dependencies:
python, py-sphinx, py-cachetools
Description:
CoAPthon3 is a porting to python3 of my CoAPthon library. CoAPthon3 is a python3 library to the CoAP protocol compliant with the RFC. Branch is available for the Twisted framework.

py-codecov

Homepage:
Spack package:
Versions:
2.0.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-coverage, py-argparse
Run Dependencies:
python, py-setuptools, py-requests, py-coverage, py-argparse
Description:
Hosted coverage reports for Github, Bitbucket and Gitlab.

py-cogent

Homepage:
Spack package:
Versions:
1.9, 1.5.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, zlib, py-matplotlib, py-mpi4py, py-sqlalchemy, py-pymysql, py-cython
Link Dependencies:
zlib
Run Dependencies:
python, py-numpy, py-matplotlib, py-mpi4py, py-sqlalchemy, py-pymysql
Description:
A toolkit for statistical analysis of biological sequences.

py-coilmq

Homepage:
Spack package:
Versions:
1.0.0, 0.6.1, 0.6.0, 0.5.0, 0.4.4, 0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-daemon, py-pid, py-six, py-click
Run Dependencies:
python, py-wheel, py-python-daemon, py-pid, py-six, py-click
Description:
Lightweight Python STOMP message broker.

py-colorama

Homepage:
Spack package:
Versions:
0.4.4, 0.4.1, 0.3.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Cross-platform colored terminal text.

py-colorclass

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docopt
Link Dependencies:
python
Run Dependencies:
python, py-docopt
Description:
Colorful worry-free console applications for Linux, Mac OS X, and Windows.

py-colored

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple library for color and formatting to terminal Very simple Python library for color and formatting in terminal. Collection of color codes and names for 256 color terminal setups. The following is a list of 256 colors for Xterm, containing an example of the displayed color, Xterm Name, Xterm Number and HEX.

py-colored-traceback

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pygments
Run Dependencies:
python, py-pygments
Description:
Automatically color Python's uncaught exception tracebacks.

py-coloredlogs

Homepage:
Spack package:
Versions:
14.0, 10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-humanfriendly
Run Dependencies:
python, py-humanfriendly
Description:
Colored terminal output for Python's logging module

py-colorful

Homepage:
Spack package:
Versions:
0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Terminal string styling done right, in Python.

py-colorio

Homepage:
Spack package:
Versions:
0.11.2
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-numpy, py-matplotlib, py-npx
Run Dependencies:
python, py-numpy, py-matplotlib, py-npx
Description:
Tools for color research

py-colorlog

Homepage:
Spack package:
Versions:
4.0.2, 3.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A colored formatter for the python logging module

py-colormath

Homepage:
Spack package:
Versions:
3.0.0, 2.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-networkx
Run Dependencies:
python, py-numpy, py-networkx
Description:
Color math and conversion library.

py-colorpy

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-numpy, py-matplotlib
Description:
ColorPy is a Python package to convert physical descriptions of light - spectra of light intensity vs. wavelength - into RGB colors that can be drawn on a computer screen. It provides a nice set of attractive plots that you can make of such spectra, and some other color related functions as well.

py-colorspacious

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
A powerful, accurate, and easy-to-use Python library for doing colorspace conversions.

py-commonmark

Homepage:
Spack package:
Versions:
0.9.1, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future
Run Dependencies:
python, py-future
Description:
commonmark.py is a pure Python port of jgm's commonmark.js, a Markdown parser and renderer for the CommonMark specification, using only native modules.

py-configargparse

Homepage:
Spack package:
Versions:
1.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Applications with more than a handful of user-settable options are best configured through a combination of command line args, config files, hard-coded defaults, and in some cases, environment variables. Python's command line parsing modules such as argparse have very limited support for config files and environment variables, so this module extends argparse to add these features.

py-configobj

Homepage:
Spack package:
Versions:
5.0.6, 4.7.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Config file reading, writing and validation.

py-configparser

Homepage:
Spack package:
Versions:
5.2.0, 3.5.1, 3.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-ordereddict
Run Dependencies:
python, py-ordereddict
Description:
This library brings the updated configparser from Python 3.5 to Python 2.6-3.5.

py-configspace

Homepage:
Spack package:
Versions:
0.4.20
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-cython, py-pyparsing
Run Dependencies:
python, py-numpy, py-pyparsing
Description:
Creation and manipulation of parameter configuration spaces for automated algorithm configuration and hyperparameter tuning.

py-connectionpool

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Thread-safe connection pool for python.

py-constantly

Homepage:
Spack package:
Versions:
15.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Symbolic constants in Python

py-contextily

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-geopy, py-matplotlib, py-mercantile, pil, py-rasterio, py-requests, py-joblib
Run Dependencies:
python, py-geopy, py-matplotlib, py-mercantile, pil, py-rasterio, py-requests, py-joblib
Description:
Context geo-tiles in Python.

py-contextlib2

Homepage:
Spack package:
Versions:
21.6.0, 0.6.0, 0.5.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
contextlib2 is a backport of the standard library's contextlib module to earlier Python versions.

py-contextvars

Homepage:
Spack package:
Versions:
2.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-immutables
Run Dependencies:
python, py-immutables
Description:
This package implements a backport of Python 3.7 contextvars module (see PEP 567) for Python 3.6.

py-control

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib
Description:
The Python Control Systems Library is a Python module that implements basic operations for analysis and design of feedback control systems.

py-convertdate

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz, py-pymeeus
Run Dependencies:
python, py-pytz, py-pymeeus
Description:
Converts between Gregorian dates and other calendar systems.Calendars included: Baha'i, French Republican, Hebrew, Indian Civil, Islamic, ISO, Julian, Mayan and Persian.

py-convokit

Homepage:
Spack package:
Versions:
2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-pandas, py-msgpack-numpy, py-spacy, py-scipy, py-scikit-learn, py-nltk, py-dill, py-joblib, py-clean-text, py-unidecode
Run Dependencies:
python, py-matplotlib, py-pandas, py-msgpack-numpy, py-spacy, py-scipy, py-scikit-learn, py-nltk, py-dill, py-joblib, py-clean-text, py-unidecode
Description:
This toolkit contains tools to extract conversational features and analyze social phenomena in conversations, using a single unified interface inspired by (and compatible with) scikit-learn.

py-cookiecutter

Homepage:
Spack package:
Versions:
1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future, py-binaryornot, py-jinja2, py-click, py-whichcraft, py-poyo, py-jinja2-time, py-requests
Run Dependencies:
python, py-future, py-binaryornot, py-jinja2, py-click, py-whichcraft, py-poyo, py-jinja2-time, py-requests
Description:
A command-line utility that creates projects from cookiecutters (project templates). E.g. Python package projects, jQuery plugin projects.

py-cookies

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Friendlier RFC 6265-compliant cookie parser/renderer

py-copulas

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy, py-pandas, py-scipy
Run Dependencies:
python, py-matplotlib, py-numpy, py-pandas, py-scipy
Description:
Copulas is a Python library for modeling multivariate distributions and sampling from them using copula functions. Given a table containing numerical data, we can use Copulas to learn the distribution and later on generate new synthetic rows following the same statistical properties.

py-counter

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Counter package defines the "counter.Counter" class similar to bags or multisets in other languages.

py-cov-core

Homepage:
Spack package:
Versions:
1.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-coverage
Run Dependencies:
python, py-coverage
Description:
plugin core for use by pytest-cov, nose-cov and nose2-cov

py-coverage

Homepage:
Spack package:
Versions:
6.3.1, 6.1.2, 5.5, 5.3, 5.0.4, 4.5.4, 4.5.3, 4.3.4, 4.0a6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tomli, py-toml
Run Dependencies:
python, py-setuptools, py-tomli, py-toml
Description:
Testing coverage checker for python

py-coveralls

Homepage:
Spack package:
Versions:
3.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-coverage, py-docopt
Run Dependencies:
python, py-pyyaml, py-coverage, py-docopt
Description:
coveralls.io is a service for publishing your coverage stats online.

py-cppheaderparser

Homepage:
Spack package:
Versions:
2.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ply
Run Dependencies:
python, py-ply
Description:
Parse C++ header files and generate a data structure representing the class

py-cppy

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
C++ headers for C extension development

py-crashtest

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core
Run Dependencies:
python
Description:
Crashtest is a Python library that makes exceptions handling and inspection easier.

py-crcmod

Homepage:
Spack package:
Versions:
1.7, 1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module for generating objects that compute the Cyclic Redundancy Check (CRC)

py-crispresso

Homepage:
Spack package:
Versions:
1.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-biopython, py-matplotlib, py-numpy, py-pandas, py-seaborn, emboss, flash, java
Run Dependencies:
python, py-biopython, py-matplotlib, py-numpy, py-pandas, py-seaborn, emboss, flash, java
Description:
Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from deep sequencing data.

py-crossmap

Homepage:
Spack package:
Versions:
0.3.9, 0.3.3, 0.2.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-pysam, py-bx-python, py-pybigwig
Run Dependencies:
python, py-cython, py-pysam, py-bx-python, py-pybigwig
Description:
CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies

py-cryolobm

Homepage:
Spack package:
Versions:
1.3.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy
Link Dependencies:
python
Run Dependencies:
python, py-matplotlib, py-numpy
Description:
The crYOLO boxmanger was written to produce annotation data for crYOLO as deep learning based particle picking procedure for cryo electro microscopy.

py-cryptography

Homepage:
Spack package:
Versions:
36.0.1, 35.0.0, 3.4.8, 3.4.7, 3.2.1, 2.7, 2.3.1, 1.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-rust, py-cffi, py-asn1crypto, py-six, py-idna, py-enum34, py-ipaddress, openssl, git
Link Dependencies:
openssl
Run Dependencies:
python, py-setuptools-rust, py-cffi, py-asn1crypto, py-six, py-idna, py-enum34, py-ipaddress
Description:
cryptography is a package which provides cryptographic recipes and primitives to Python developers

py-cssselect

Homepage:
Spack package:
Versions:
1.1.0, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python-cssselect parses CSS3 Selectors and translate them to XPath 1.0 expressions. Such expressions can be used in lxml or another XPath engine to find the matching elements in an XML or HTML document.

py-ctgan

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging, py-numpy, py-pandas, py-scikit-learn, py-torch, py-torchvision, py-rdt
Run Dependencies:
python, py-packaging, py-numpy, py-pandas, py-scikit-learn, py-torch, py-torchvision, py-rdt
Description:
CTGAN is a collection of Deep Learning based Synthetic Data Generators for single table data, which are able to learn from real data and generate synthetic clones with high fidelity.

py-cudf

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-cython, py-numba, py-numpy, py-pyarrow, py-pandas, py-rmm, cuda, py-cupy, py-fsspec, libcudf
Link Dependencies:
cuda, libcudf
Run Dependencies:
python, py-numba, py-numpy, py-pyarrow, py-pandas, py-rmm, py-cupy, py-fsspec
Description:
Built based on the Apache Arrow columnar memory format, cuDF is a GPU DataFrame library for loading, joining, aggregating, filtering, and otherwise manipulating data.

py-cuml

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-numba, py-cudf, cuda, py-cupy, py-scipy, treelite, py-joblib, py-scikit-learn, libcumlprims, libcuml
Link Dependencies:
cuda, libcumlprims, libcuml
Run Dependencies:
python, py-numpy, py-numba, py-cudf, py-cupy, py-scipy, treelite, py-joblib, py-scikit-learn
Description:
cuML is a suite of libraries that implement machine learning algorithms and mathematical primitives functions that share compatible APIs with other RAPIDS projects.

py-cupy

Homepage:
Spack package:
Versions:
8.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-fastrlock, py-numpy, cuda, nccl, cudnn
Link Dependencies:
cuda, nccl, cudnn
Run Dependencies:
python, py-fastrlock, py-numpy
Description:
CuPy is an open-source array library accelerated with NVIDIA CUDA. CuPy provides GPU accelerated computing with Python. CuPy uses CUDA-related libraries including cuBLAS, cuDNN, cuRand, cuSolver, cuSPARSE, cuFFT and NCCL to make full use of the GPU architecture.

py-current

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Current module relative paths and imports

py-cutadapt

Homepage:
Spack package:
Versions:
2.10, 2.9, 2.5, 1.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-xopen, py-dnaio
Run Dependencies:
python, py-setuptools, py-xopen, py-dnaio
Description:
Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads.

py-cvxopt

Homepage:
Spack package:
Versions:
1.2.5, 1.1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, blas, lapack, suite-sparse, gsl, fftw, glpk, dsdp
Link Dependencies:
python, blas, lapack, suite-sparse, gsl, fftw, glpk, dsdp
Run Dependencies:
python
Description:
CVXOPT is a free software package for convex optimization based on the Python programming language.

py-cvxpy

Homepage:
Spack package:
Versions:
1.1.13, 1.0.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-ecos, py-scs, py-osqp, py-multiprocess, py-six
Run Dependencies:
python, py-numpy, py-scipy, py-ecos, py-scs, py-osqp, py-multiprocess, py-six
Description:
Convex optimization, for everyone.

py-cx-oracle

Homepage:
Spack package:
Versions:
8.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, oracle-instant-client
Description:
Python interface to Oracle

py-cycler

Homepage:
Spack package:
Versions:
0.11.0, 0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Composable style cycles.

py-cymem

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Manage calls to calloc/free through Cython.

py-cyordereddict

Homepage:
Spack package:
Versions:
1.0.0, 0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The Python standard library's OrderedDict ported to Cython. A drop-in replacement that is 2-6x faster.

py-cython

Homepage:
Spack package:
Versions:
3.0.0a9, 0.29.30, 0.29.24, 0.29.23, 0.29.22, 0.29.21, 0.29.20, 0.29.16, 0.29.15, 0.29.14, 0.29.13, 0.29.10, 0.29.7, 0.29.5, 0.29, 0.28.6, 0.28.3, 0.28.1, 0.25.2, 0.23.5, 0.23.4, 0.21.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python, py-setuptools
Test Dependencies:
gdb
Description:
The Cython compiler for writing C extensions for the Python language.

py-cython-bbox

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy
Run Dependencies:
python, py-numpy
Description:
cython_bbox is widely used in object detection tasks. To my best knowledge, it was first implemented in Faster-RCNN. Since then, almost all object detection projects use the source code directly. In order to use it in standalone code snippets or small projects, I make it a pypi module. The cython_bbox.pyx is totally borrowed from Faster-RCNN. Thanks RBG!

py-cyvcf2

Homepage:
Spack package:
Versions:
0.11.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-coloredlogs, py-click, curl
Link Dependencies:
curl
Run Dependencies:
python, py-numpy, py-coloredlogs, py-click
Description:
fast vcf parsing with cython + htslib

py-d2to1

Homepage:
Spack package:
Versions:
0.2.12.post1, 0.2.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
d2to1 (the 'd' is for 'distutils') allows using distutils2-like setup.cfg files for a package's metadata with a distribute/setuptools setup.py script.

py-dadi

Homepage:
Spack package:
Versions:
2020-12-02, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-numpy, py-matplotlib, nlopt
Run Dependencies:
python, py-scipy, py-numpy, py-matplotlib, nlopt
Description:
Fit population genetic models of demography and selection using diffusion approximations to the allele frequency spectrum

py-damask

Homepage:
Spack package:
Versions:
3.0.0-alpha6, 3.0.0-alpha5, 3.0.0-alpha4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, vtk, py-pandas, py-scipy, py-h5py, py-matplotlib, py-pyyaml
Run Dependencies:
python, vtk, py-pandas, py-scipy, py-h5py, py-matplotlib, py-pyyaml
Description:
Pre- and post-processing tools for DAMASK

py-dask

Homepage:
Spack package:
Versions:
2021.6.2, 2021.4.1, 2020.12.0, 2.16.0, 1.2.2, 1.1.2, 1.1.0, 0.17.4, 0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-cloudpickle, py-fsspec, py-toolz, py-partd, py-numpy, py-dill, py-pandas, py-pyzmq, py-distributed, py-bokeh
Run Dependencies:
python, py-pyyaml, py-cloudpickle, py-fsspec, py-toolz, py-partd, py-numpy, py-dill, py-pandas, py-pyzmq, py-distributed, py-bokeh
Description:
Dask is a flexible parallel computing library for analytics.

py-dask-sphinx-theme

Homepage:
Spack package:
Versions:
1.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx-rtd-theme
Run Dependencies:
python, py-sphinx-rtd-theme
Description:
Sphinx theme for Dask documentation.

py-dataclasses

Homepage:
Spack package:
Versions:
0.8, 0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A backport of the dataclasses module for Python 3.6

py-datalad

Homepage:
Spack package:
Versions:
0.15.5, 0.15.3, 0.15.2, 0.15.1, 0.14.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, git, git-annex, py-appdirs, py-chardet, py-distro, py-importlib-metadata, py-iso8601, py-humanize, py-fasteners, py-packaging, py-patool, py-tqdm, py-wrapt, py-annexremote, py-boto, py-keyring, py-keyrings-alt, py-msgpack, py-requests, py-pygithub, py-python-gitlab, py-jsmin, py-simplejson, py-whoosh, py-requests-ftp, py-argcomplete, py-pyperclip, py-python-dateutil, py-beautifulsoup4, py-httpretty, py-nose, py-vcrpy, py-pyyaml, py-mutagen, py-exifread, py-python-xmp-toolkit, pil, py-duecredit
Run Dependencies:
python, git, git-annex, py-appdirs, py-chardet, py-distro, py-importlib-metadata, py-iso8601, py-humanize, py-fasteners, py-packaging, py-patool, py-tqdm, py-wrapt, py-annexremote, py-boto, py-keyring, py-keyrings-alt, py-msgpack, py-requests, py-pygithub, py-python-gitlab, py-jsmin, py-simplejson, py-whoosh, py-requests-ftp, py-argcomplete, py-pyperclip, py-python-dateutil, py-beautifulsoup4, py-httpretty, py-nose, py-vcrpy, py-pyyaml, py-mutagen, py-exifread, py-python-xmp-toolkit, pil, py-duecredit
Description:
data distribution geared toward scientific datasets. DataLad makes data management and data distribution more accessible. To do that, it stands on the shoulders of Git and Git-annex to deliver a decentralized system for data exchange. This includes automated ingestion of data from online portals and exposing it in readily usable form as Git(-annex) repositories, so-called datasets. The actual data storage and permission management, however, remains with the original data providers.

py-datalad-container

Homepage:
Spack package:
Versions:
1.1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-datalad, py-requests
Description:
DataLad extension package for working with containerized environments

py-datalad-hirni

Homepage:
Spack package:
Versions:
0.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-datalad, py-datalad-metalad, py-datalad-neuroimaging, py-datalad-container, py-datalad-webapp
Run Dependencies:
python, py-datalad, py-datalad-metalad, py-datalad-neuroimaging, py-datalad-container, py-datalad-webapp, git-annex
Description:
DataLad extension for raw data capturing and conversion workflows

py-datalad-metalad

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-datalad
Run Dependencies:
python, py-datalad, git-annex
Description:
DataLad extension for semantic metadata handling

py-datalad-neuroimaging

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-datalad, py-pydicom, py-pybids, py-nibabel, py-pandas
Run Dependencies:
python, py-datalad, py-pydicom, py-pybids, py-nibabel, py-pandas, git-annex
Description:
DataLad extension package for neuro/medical imaging

py-datalad-webapp

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-datalad, py-flask, py-flask-restful, py-pytest-cov
Run Dependencies:
python, py-datalad, py-flask, py-flask-restful, py-pytest-cov
Description:
DataLad extension for exposing commands via a web request API

py-datasets

Homepage:
Spack package:
Versions:
1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pyarrow, py-dill, py-pandas, py-requests, py-tqdm, py-dataclasses, py-xxhash, py-multiprocess, py-importlib-metadata, py-huggingface-hub, py-packaging, py-fsspec
Run Dependencies:
python, py-numpy, py-pyarrow, py-dill, py-pandas, py-requests, py-tqdm, py-dataclasses, py-xxhash, py-multiprocess, py-importlib-metadata, py-huggingface-hub, py-packaging, py-fsspec
Description:
Datasets is a lightweight library providing two main features: one-line dataloaders for many public datasets and efficient data pre-processing.

py-dateparser

Homepage:
Spack package:
Versions:
0.7.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-pytz, py-regex, py-tzlocal, py-umalqurra, py-ruamel-yaml, py-convertdate, py-jdatetime
Run Dependencies:
python, py-python-dateutil, py-pytz, py-regex, py-tzlocal, py-umalqurra, py-ruamel-yaml, py-convertdate, py-jdatetime
Description:
dateparser -- python parser for human readable dates

py-datrie

Homepage:
Spack package:
Versions:
0.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-pytest-runner
Run Dependencies:
python
Description:
Super-fast, efficiently stored Trie for Python (2.x and 3.x). Uses libdatrie.

py-dbf

Homepage:
Spack package:
Versions:
0.96.005, 0.94.003
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pure python package for reading/writing dBase, FoxPro, and Visual FoxPro .dbf files (including memos)

py-dbfread

Homepage:
Spack package:
Versions:
2.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
DBF is a file format used by databases such dBase, Visual FoxPro, and FoxBase+. This library reads DBF files and returns the data as native Python data types for further processing. It is primarily intended for batch jobs and one-off scripts.

py-deap

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Distributed Evolutionary Algorithms in Python.

py-debtcollector

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-six, py-wrapt
Run Dependencies:
python, py-six, py-wrapt
Description:
A collection of Python deprecation patterns and strategies that help you collect your technical debt in a non-destructive manner.

py-debugpy

Homepage:
Spack package:
Versions:
1.5.1, 1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
An implementation of the Debug Adapter Protocol for Python.

py-decorator

Homepage:
Spack package:
Versions:
5.1.1, 5.1.0, 5.0.9, 4.4.2, 4.4.0, 4.3.2, 4.3.0, 4.0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The aim of the decorator module it to simplify the usage of decorators for the average programmer, and to popularize decorators by showing various non-trivial examples.

py-deepdiff

Homepage:
Spack package:
Versions:
5.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ordered-set
Run Dependencies:
python, py-ordered-set
Description:
Deep Difference and Search of any Python object/data..

py-deepecho

Homepage:
Spack package:
Versions:
0.3.0.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-numpy, py-pandas, py-torch, py-tqdm
Run Dependencies:
python, py-numpy, py-pandas, py-torch, py-tqdm
Description:
DeepEcho is a Synthetic Data Generation Python library for mixed-type, multivariate time series.

py-deepsig

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-tqdm, py-joblib, py-pandas, py-dill
Run Dependencies:
python, py-numpy, py-scipy, py-tqdm, py-joblib, py-pandas, py-dill
Description:
deep-significance: Easy and Better Significance Testing for Deep Neural Networks

py-deeptools

Homepage:
Spack package:
Versions:
3.3.0, 3.2.1, 2.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-py2bit, py-pybigwig, py-pysam, py-matplotlib, py-numpydoc, py-plotly, py-deeptoolsintervals
Run Dependencies:
python, py-numpy, py-scipy, py-py2bit, py-pybigwig, py-pysam, py-matplotlib, py-numpydoc, py-plotly, py-deeptoolsintervals
Description:
deepTools addresses the challenge of handling the large amounts of data that are now routinely generated from DNA sequencing centers.

py-deeptoolsintervals

Homepage:
Spack package:
Versions:
0.1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A python module creating/accessing GTF-based interval trees with associated meta-data.

py-defusedxml

Homepage:
Spack package:
Versions:
0.7.1, 0.6.0, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
defusing XML bombs and other exploits

py-dendropy

Homepage:
Spack package:
Versions:
4.3.0, 3.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
DendroPy is a Python library for phylogenetic computing. It provides classes and functions for the simulation, processing, and manipulation of phylogenetic trees and character matrices, and supports the reading and writing of phylogenetic data in a range of formats, such as NEXUS, NEWICK, NeXML, Phylip, FASTA, etc.

py-deprecated

Homepage:
Spack package:
Versions:
1.2.13, 1.2.7
Build Dependencies:
python, py-pip, py-wheel, py-wrapt, py-setuptools
Run Dependencies:
python, py-wrapt
Description:
Python @deprecated decorator to deprecate old python classes, functions or methods.

py-deprecation

Homepage:
Spack package:
Versions:
2.1.0, 2.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging
Run Dependencies:
python, py-packaging
Description:
The deprecation library provides a deprecated decorator and a fail_if_not_removed decorator for your tests.

py-descartes

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib
Run Dependencies:
python, py-matplotlib
Description:
Use Shapely or GeoJSON-like geometric objects as matplotlib paths and patches

py-devlib

Homepage:
Spack package:
Versions:
1.2, 1.1.2, 1.1.1, 1.1.0, 1.0.0, 0.0.4, 0.0.3, 0.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-pexpect, py-pyserial, py-wrapt, py-future, py-pandas, py-enum34, py-contextlib2, py-numpy
Run Dependencies:
python, py-python-dateutil, py-pexpect, py-pyserial, py-wrapt, py-future, py-pandas, py-enum34, py-contextlib2, py-numpy
Description:
Library for interaction with and instrumentation of remote devices.

py-dgl

Homepage:
Spack package:
Versions:
master, 0.4.3, 0.4.2
Build Dependencies:
cmake, cuda, llvm-openmp, python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-networkx, py-requests
Link Dependencies:
cuda, llvm-openmp
Run Dependencies:
python, py-numpy, py-scipy, py-networkx, py-requests, py-torch, mxnet, py-tensorflow, py-tfdlpack
Description:
Deep Graph Library (DGL). DGL is an easy-to-use, high performance and scalable Python package for deep learning on graphs. DGL is framework agnostic, meaning if a deep graph model is a component of an end-to-end application, the rest of the logics can be implemented in any major frameworks, such as PyTorch, Apache MXNet or TensorFlow.

py-dh-scikit-optimize

Homepage:
Spack package:
Versions:
0.9.5, 0.9.4, 0.9.3, 0.9.2, 0.9.1, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-joblib, py-pyaml, py-numpy, py-scipy, py-scikit-learn, py-configspace, py-pandas
Run Dependencies:
python, py-joblib, py-pyaml, py-numpy, py-scipy, py-scikit-learn, py-configspace, py-pandas, py-matplotlib
Description:
A Modified version of scikit-optimize a Sequential model-based optimization toolbox for DeepHyper. Scikit-Optimize, or skopt, is a simple and efficient library to minimize (very) expensive and noisy black-box functions. It implements several methods for sequential model- based optimization. skopt aims to be accessible and easy to use in many contexts. The library is built on top of NumPy, SciPy and Scikit-Learn.

py-dictdiffer

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest-runner
Run Dependencies:
python, py-setuptools
Description:
Dictdiffer is a helper module that helps you to diff and patch dictionares.

py-dill

Homepage:
Spack package:
Versions:
0.3.4, 0.3.1, 0.2.9, 0.2.7, 0.2.6, 0.2.5, 0.2.4, 0.2.3, 0.2.2, 0.2.1, 0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Serialize all of python

py-dipy

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-nibabel, py-h5py, py-packaging, py-tqdm
Run Dependencies:
python, py-numpy, py-scipy, py-nibabel, py-h5py, py-packaging, py-tqdm
Description:
Diffusion MRI utilities in python. DIPY is the paragon 3D/4D+ imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.

py-discover

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Test discovery for unittest.

py-diskcache

Homepage:
Spack package:
Versions:
5.2.1, 4.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Disk Cache -- Disk and file backed persistent cache.

py-distance

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This package provides helpers for computing similarities between arbitrary sequences. Included metrics are Levenshtein, Hamming, Jaccard, and Sorensen distance, plus some bonuses.

py-distlib

Homepage:
Spack package:
Versions:
0.3.4, 0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Distribution utilities

py-distro

Homepage:
Spack package:
Versions:
1.6.0, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Distro - an OS platform information API.

py-django

Homepage:
Spack package:
Versions:
3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 2.2.12, 2.2.11, 2.2.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz, py-sqlparse, py-asgiref
Run Dependencies:
python, py-pytz, py-sqlparse, py-asgiref
Description:
The Web framework for perfectionists with deadlines.

py-dlcpar

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
DLCpar is a reconciliation method for inferring gene duplications, losses, and coalescence (accounting for incomplete lineage sorting).

py-dm-tree

Homepage:
Spack package:
Versions:
0.1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, bazel, py-six
Run Dependencies:
python, py-six
Description:
tree is a library for working with nested data structures. In a way, tree generalizes the builtin map() function which only supports flat sequences, and allows to apply a function to each leaf preserving the overall structure.

py-dnaio

Homepage:
Spack package:
Versions:
0.4.2, 0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-xopen
Run Dependencies:
python, py-setuptools, py-xopen
Description:
Read and write FASTQ and FASTA

py-docker

Homepage:
Spack package:
Versions:
4.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-websocket-client, py-requests, py-backports-ssl-match-hostname, py-ipaddress
Run Dependencies:
python, py-six, py-websocket-client, py-requests, py-backports-ssl-match-hostname, py-ipaddress
Description:
A Python library for the Docker Engine API.

py-dockerpy-creds

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0, 0.2.3, 0.2.2, 0.2.1, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Python bindings for the docker credentials store API

py-docopt

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Command-line interface description language.

py-docutils

Homepage:
Spack package:
Versions:
0.18.1, 0.18, 0.17.1, 0.17, 0.16, 0.15.2, 0.14, 0.13.1, 0.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Docutils is an open-source text processing system for processing plaintext documentation into useful formats, such as HTML, LaTeX, man- pages, open-document or XML. It includes reStructuredText, the easy to read, easy to use, what-you-see-is-what-you-get plaintext markup language.

py-docutils-stubs

Homepage:
Spack package:
Versions:
0.0.21
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils
Run Dependencies:
python, py-docutils
Description:
PEP 561 based Type information for docutils.

py-dominate

Homepage:
Spack package:
Versions:
2.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Dominate is a Python library for creating and manipulating HTML documents using an elegant DOM API. It allows you to write HTML pages in pure Python very concisely, which eliminates the need to learn another template language, and lets you take advantage of the more powerful features of Python.

py-dotnetcore2

Homepage:
Spack package:
Versions:
2.1.14
Build Dependencies:
python, py-pip, py-wheel, py-distro
Run Dependencies:
python, py-distro
Description:
.Net Core 2.1 runtime.

py-downhill

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-theano, py-click
Run Dependencies:
python, py-theano, py-click
Description:
Stochastic optimization routines for Theano

py-doxypy

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
doxypy is an input filter for Doxygen.

py-doxypypy

Homepage:
Spack package:
Versions:
0.8.8.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Doxygen filter for Python. A more Pythonic version of doxypy, a Doxygen filter for Python.

py-dp-gp-cluster

Homepage:
Spack package:
Versions:
2019-09-22
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-gpy, py-pandas, py-numpy, py-scipy, py-matplotlib, py-scikit-learn
Run Dependencies:
python, py-gpy, py-pandas, py-numpy, py-scipy, py-matplotlib, py-scikit-learn
Description:
DP_GP_cluster clusters genes by expression over a time course using a Dirichlet process Gaussian process model.

py-dpath

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A python library for accessing and searching dictionaries via /slashed/paths ala xpath.

py-drmaa

Homepage:
Spack package:
Versions:
0.7.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python wrapper around the C DRMAA library.

py-dryscrape

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lxml, py-webkit-server, py-xvfbwrapper
Run Dependencies:
python, py-lxml, py-webkit-server, py-xvfbwrapper
Description:
a lightweight Javascript-aware, headless web scraping library for Python

py-duecredit

Homepage:
Spack package:
Versions:
0.9.1, 0.6.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-citeproc-py, py-six, py-importlib-metadata
Run Dependencies:
python, py-requests, py-citeproc-py, py-six, py-importlib-metadata
Description:
Publications (and donations) tracer.

py-dulwich

Homepage:
Spack package:
Versions:
0.20.21, 0.20.15, 0.20.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-certifi, py-urllib3
Run Dependencies:
python, py-certifi, py-urllib3
Description:
Dulwich aims to provide an interface to Git repos (both local and remote) that doesn't call out to Git directory, but instead uses pure Python.

py-dxchange

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-h5py, py-six, py-netcdf4, py-spefile, py-edffile, py-tifffile, py-dxfile, py-olefile, py-astropy
Run Dependencies:
python, py-numpy, py-scipy, py-h5py, py-six, py-netcdf4, py-spefile, py-edffile, py-tifffile, py-dxfile, py-olefile, py-astropy
Description:
DXchange provides an interface with tomoPy and raw tomographic data collected at different synchrotron facilities.

py-dxfile

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-h5py
Run Dependencies:
python, py-h5py
Description:
Scientific Data Exchange [A1] is a set of guidelines for storing scientific data and metadata in a Hierarchical Data Format 5 [B6] file.

py-earthengine-api

Homepage:
Spack package:
Versions:
0.1.186
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-api-python-client, py-google-auth, py-google-auth-httplib2, py-httplib2, py-six
Run Dependencies:
python, py-google-api-python-client, py-google-auth, py-google-auth-httplib2, py-httplib2, py-six
Description:
This package allows developers to interact with Google Earth Engine using the Python programming language.

py-easybuild-easyblocks

Homepage:
Spack package:
Versions:
4.0.0, 3.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-easybuild-framework
Description:
Collection of easyblocks for EasyBuild, a software build and installation framework for (scientific) software on HPC systems.

py-easybuild-easyconfigs

Homepage:
Spack package:
Versions:
4.0.0, 3.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-easybuild-framework, py-easybuild-easyblocks
Description:
Collection of easyconfig files for EasyBuild, a software build and installation framework for (scientific) software on HPC systems.

py-easybuild-framework

Homepage:
Spack package:
Versions:
4.0.0, 3.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, py-vsc-base
Description:
The core of EasyBuild, a software build and installation framework for (scientific) software on HPC systems.

py-eccodes

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-attrs, py-cffi, py-findlibs
Run Dependencies:
python, py-numpy, py-attrs, py-cffi, py-findlibs, eccodes
Description:
Python interface to the ecCodes GRIB and BUFR decoder/encoder.

py-ecdsa

Homepage:
Spack package:
Versions:
0.15, 0.13.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
ECDSA cryptographic signature library (pure python)

py-ecos

Homepage:
Spack package:
Versions:
2.0.7.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
This is the Python package for ECOS: Embedded Cone Solver.

py-edffile

Homepage:
Spack package:
Versions:
5.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Generic class for Edf files manipulation.

py-editdistance

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Fast implementation of the edit distance (Levenshtein distance).

py-efficientnet-pytorch

Homepage:
Spack package:
Versions:
0.7.1, 0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch
Run Dependencies:
python, py-torch
Description:
EfficientNet implemented in PyTorch.

py-eg

Homepage:
Spack package:
Versions:
1.2.0, 1.1.1, 1.1.0, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
eg provides examples of common uses of command line tools.

py-einops

Homepage:
Spack package:
Versions:
0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Flexible and powerful tensor operations for readable and reliable code. Supports numpy, pytorch, tensorflow, and others.

py-elasticsearch

Homepage:
Spack package:
Versions:
7.5.1, 6.4.0, 5.2.0, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-urllib3
Run Dependencies:
python, py-urllib3
Description:
Python client for Elasticsearch

py-elephant

Homepage:
Spack package:
Versions:
0.4.1, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-neo, py-numpy, py-quantities, py-scipy, py-pandas, py-numpydoc, py-sphinx
Run Dependencies:
python, py-neo, py-numpy, py-quantities, py-scipy, py-pandas, py-numpydoc, py-sphinx
Description:
Elephant is a package for analysis of electrophysiology data in Python

py-emcee

Homepage:
Spack package:
Versions:
3.1.1, 3.0.2, 2.2.1, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-numpy
Run Dependencies:
python, py-numpy
Description:
emcee is an MIT licensed pure-Python implementation of Goodman & Weare's Affine Invariant Markov chain Monte Carlo (MCMC) Ensemble sampler.

py-emoji

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Emoji for Python.

py-empy

Homepage:
Spack package:
Versions:
3.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A powerful and robust templating system for Python

py-entrypoints

Homepage:
Spack package:
Versions:
0.4, 0.3, 0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-flit, py-configparser
Run Dependencies:
python, py-configparser
Description:
Discover and load entry points from installed packages.

py-enum34

Homepage:
Spack package:
Versions:
1.1.10, 1.1.6
Build Dependencies:
python, py-pip, py-wheel, py-ordereddict, py-setuptools
Run Dependencies:
python, py-ordereddict
Description:
Python 3.4 Enum backported to 3.3, 3.2, 3.1, 2.7, 2.6, 2.5, and 2.4.

py-envisage

Homepage:
Spack package:
Versions:
6.0.1, 4.9.2
Build Dependencies:
python, py-pip, py-wheel, py-apptools, py-setuptools, py-six, py-traits
Run Dependencies:
python, py-apptools, py-setuptools, py-six, py-traits
Description:
Envisage is a Python-based framework for building extensible applications, that is, applications whose functionality can be extended by adding "plug-ins". Envisage provides a standard mechanism for features to be added to an application, whether by the original developer or by someone else. In fact, when you build an application using Envisage, the entire application consists primarily of plug-ins. In this respect, it is similar to the Eclipse and Netbeans frameworks for Java applications.

py-ephem

Homepage:
Spack package:
Versions:
3.7.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PyEphem provides an ephem Python package for performing high-precision astronomy computations.

py-epydoc

Homepage:
Spack package:
Versions:
3.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Epydoc is a tool for generating API documentation documentation for Python modules, based on their docstrings.

py-espresso

Homepage:
Spack package:
Versions:
develop, 4.0.2, 4.0.1, 4.0.0
Build Dependencies:
cmake, mpi, boost, python, py-cython, py-numpy, fftw, hdf5
Link Dependencies:
mpi, boost, fftw, hdf5
Run Dependencies:
python, py-numpy
Description:
ESPResSo is a highly versatile software package for performing and analyzing scientific Molecular Dynamics many-particle simulations of coarse-grained atomistic or bead-spring models as they are used in soft matter research in physics, chemistry and molecular biology. It can be used to simulate systems such as polymers, liquid crystals, colloids, polyelectrolytes, ferrofluids and biological systems, for example DNA and lipid membranes. It also has a DPD and lattice Boltzmann solver for hydrodynamic interactions, and allows several particle couplings to the LB fluid.

py-espressopp

Homepage:
Spack package:
Versions:
master, 3.0.0, 2.0.2, 1.9.5
Build Dependencies:
cmake, mpi, boost, python, py-mpi4py, fftw, py-sphinx, py-numpy, py-pyh5md, py-matplotlib, texlive, doxygen
Link Dependencies:
mpi, boost, fftw
Run Dependencies:
python, py-mpi4py, py-numpy, py-pyh5md
Description:
ESPResSo++ is an extensible, flexible, fast and parallel simulation software for soft matter research. It is a highly versatile software package for the scientific simulation and analysis of coarse-grained atomistic or bead-spring models as they are used in soft matter research

py-et-xmlfile

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
An implementation of lxml.xmlfile for the standard library.

py-etelemetry

Homepage:
Spack package:
Versions:
0.3.0, 0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-ci-info
Run Dependencies:
python, py-requests, py-ci-info
Description:
A lightweight python client to communicate with the etelemetry server

py-eventlet

Homepage:
Spack package:
Versions:
0.22.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-greenlet, py-enum34
Link Dependencies:
py-greenlet
Run Dependencies:
python, py-enum34
Description:
Concurrent networking library for Python

py-execnet

Homepage:
Spack package:
Versions:
1.7.1, 1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-apipkg
Run Dependencies:
python, py-apipkg
Description:
execnet provides a share-nothing model with channel-send/receive communication for distributing execution across many Python interpreters across version, platform and network barriers.

py-executing

Homepage:
Spack package:
Versions:
0.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Get the currently executing AST node of a frame, and other information.

py-exifread

Homepage:
Spack package:
Versions:
2.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Read Exif metadata from tiff and jpeg files.

py-exodus-bundler

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, musl, py-setuptools
Description:
Exodus is a tool that makes it easy to successfully relocate Linux ELF binaries from one system to another.

py-extension-helpers

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The extension-helpers package includes convenience helpers to assist with building Python packages with compiled C/Cython extensions. It is developed by the Astropy project but is intended to be general and usable by any Python package.

py-extras

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Useful extra bits for Python - things that shold be in the standard library.

py-ez-setup

Homepage:
Spack package:
Versions:
0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Setuptools bootstrap module, which is not always packaged with setuptools.

py-f90wrap

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
f90wrap is a tool to automatically generate Python extension modules which interface to Fortran code that makes use of derived types.

py-fabric

Homepage:
Spack package:
Versions:
2.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-invoke, py-paramiko
Run Dependencies:
python, py-invoke, py-paramiko
Description:
High level SSH command execution.

py-faker

Homepage:
Spack package:
Versions:
9.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-text-unidecode, py-typing-extensions
Run Dependencies:
python, py-python-dateutil, py-text-unidecode, py-typing-extensions
Description:
Faker is a Python package that generates fake data for you. Whether you need to bootstrap your database, create good-looking XML documents, fill-in your persistence to stress test it, or anonymize data taken from a production service, Faker is for you.

py-falcon

Homepage:
Spack package:
Versions:
3.0.0a2, 3.0.0a1, 2.0.0rc4, 2.0.0rc3, 2.0.0rc2, 2.0.0rc1, 2.0.0b2, 2.0.0b1, 2.0.0a2, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Run Dependencies:
python, py-cython
Description:
Falcon is a reliable, high-performance Python web framework for building large-scale app backends and microservices.

py-fallocate

Homepage:
Spack package:
Versions:
1.6.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Module to expose posix_fallocate(3), posix_fadvise(3) and fallocate(2)

py-fastai

Homepage:
Spack package:
Versions:
2.5.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging, py-fastdownload, py-fastcore, py-torchvision, py-matplotlib, py-pandas, py-requests, py-pyyaml, py-fastprogress, pil, py-scikit-learn, py-scipy, py-spacy, py-torch
Run Dependencies:
python, py-fastdownload, py-fastcore, py-torchvision, py-matplotlib, py-pandas, py-requests, py-pyyaml, py-fastprogress, pil, py-scikit-learn, py-scipy, py-spacy, py-torch
Description:
You can use fastai without any installation by using Google Colab. In fact, every page of this documentation is also available as an interactive notebook - click "Open in colab" at the top of any page to open it (be sure to change the Colab runtime to "GPU" to have it run fast!) See the fast.ai documentation on Using Colab for more information.

py-fastaindex

Homepage:
Spack package:
Versions:
0.11rc7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
FastA index (.fai) handler compatible with samtools faidx is extended with 4 columns storing counts for A, C, G & T for each sequence..

py-fastavro

Homepage:
Spack package:
Versions:
1.0.0.post1, 1.0.0, 0.24.2, 0.24.1, 0.24.0, 0.23.6, 0.23.5, 0.23.4, 0.23.3, 0.23.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-snappy, py-lz4, py-cython
Run Dependencies:
python, py-snappy, py-lz4, py-cython
Description:
Fastavro for Python.

py-fastcache

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
C implementation of Python 3 functools.lru_cache

py-fastcluster

Homepage:
Spack package:
Versions:
1.1.26
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Fast hierarchical clustering routines for R and Python.

py-fastcore

Homepage:
Spack package:
Versions:
1.3.27
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging
Run Dependencies:
python
Description:
Python is a powerful, dynamic language. Rather than bake everything into the language, it lets the programmer customize it to make it work for them. fastcore uses this flexibility to add to Python features inspired by other languages we've loved, like multiple dispatch from Julia, mixins from Ruby, and currying, binding, and more from Haskell. It also adds some "missing features" and clean up some rough edges in the Python standard library, such as simplifying parallel processing, and bringing ideas from NumPy over to Python's list type.

py-fastcov

Homepage:
Spack package:
Versions:
1.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A parallelized gcov wrapper for generating intermediate coverage formats fast

py-fastdownload

Homepage:
Spack package:
Versions:
0.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-fastprogress, py-fastcore
Run Dependencies:
python, py-fastprogress, py-fastcore
Description:
If you have datasets or other archives that you want to make available to your users, and ensure they always have the latest versions and that they are downloaded correctly, fastdownload can help.

py-fastdtw

Homepage:
Spack package:
Versions:
0.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-cython
Run Dependencies:
python, py-numpy
Description:
Python implementation of FastDTW (http://cs.fit.edu/~pkc/papers/tdm04.pdf), which is an approximate Dynamic Time Warping (DTW) algorithm that provides optimal or near- optimal alignments with an O(N) time and memory complexity.

py-fasteners

Homepage:
Spack package:
Versions:
0.17.3, 0.16.3, 0.14.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-monotonic, py-six
Run Dependencies:
python, py-monotonic, py-six
Description:
A python package that provides useful locks.

py-fastjsonschema

Homepage:
Spack package:
Versions:
2.15.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Fast JSON schema validator for Python.

py-fastprogress

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
A fast and simple progress bar for Jupyter Notebook and console. Created by Sylvain Gugger for fast.ai.

py-fastrlock

Homepage:
Spack package:
Versions:
0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Run Dependencies:
python
Description:
This is a C-level implementation of a fast, re-entrant, optimistic lock for CPython.

py-faststructure

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, gsl
Link Dependencies:
gsl
Run Dependencies:
python, py-numpy
Description:
FastStructure is a fast algorithm for inferring population structure from large SNP genotype data.

py-fava

Homepage:
Spack package:
Versions:
1.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-babel, py-beancount, py-cheroot, py-click, py-flask, py-flask-babel, py-jinja2, py-markdown2, py-ply, py-pytest, py-simplejson, py-werkzeug
Run Dependencies:
python, py-setuptools, py-babel, py-beancount, py-cheroot, py-click, py-flask, py-flask-babel, py-jinja2, py-markdown2, py-ply, py-pytest, py-simplejson, py-werkzeug
Description:
Fava is a web interface for the double-entry bookkeeping software Beancount with a focus on features and usability.

py-fenics-basix

Homepage:
Spack package:
Versions:
main, 0.4.2, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, fenics-basix, py-setuptools, cmake, xtl, xtensor, py-pybind11
Run Dependencies:
python, fenics-basix
Description:
Python basis evaluation library for Next generation FEniCS problem solving environment

py-fenics-dijitso

Homepage:
Spack package:
Versions:
master, 2019.1.0, 2018.1.0, 2017.2.0, 2017.1.0, 2016.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
A Python module for distributed just-in-time shared library building

py-fenics-dolfinx

Homepage:
Spack package:
Versions:
main, 0.4.1, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, cmake, hdf5, pkgconfig, py-setuptools, fenics-dolfinx, fenics-basix, py-numpy, py-mpi4py, py-petsc4py, py-pybind11, xtensor
Link Dependencies:
fenics-dolfinx, fenics-basix
Run Dependencies:
python, pkgconfig, py-fenics-ffcx, py-fenics-ufl, py-numpy, py-mpi4py, py-petsc4py, py-pybind11, py-cffi
Description:
Python interface library to Next generation FEniCS problem solving environment

py-fenics-ffc

Homepage:
Spack package:
Versions:
2019.1.0.post0, 2018.1.0, 2017.2.0.post0, 2016.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-fenics-fiat, py-fenics-dijitso, py-fenics-ufl, py-fenics-instant
Run Dependencies:
python, py-setuptools, py-numpy, py-fenics-fiat, py-fenics-dijitso, py-fenics-ufl, py-fenics-instant
Description:
The FEniCS Form Compiler FFC is a compiler for finite element variational forms, translating high-level mathematical descriptions of variational forms into efficient low-level C++ code for finite element assembly.

py-fenics-ffcx

Homepage:
Spack package:
Versions:
main, 0.4.2, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-cffi, py-fenics-ufl, py-fenics-basix, py-numpy
Description:
Next generation FEniCS Form Compiler

py-fenics-fiat

Homepage:
Spack package:
Versions:
master, 2019.1.0, 2018.1.0, 2017.2.0, 2017.1.0.post1, 2017.1.0, 2016.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-sympy
Run Dependencies:
python, py-numpy, py-sympy
Description:
The FInite element Automatic Tabulator FIAT supports generation of arbitrary order instances of the Lagrange elements on lines, triangles, and tetrahedra. It is also capable of generating arbitrary order instances of Jacobi-type quadrature rules on the same element shapes. Further, H(div) and H(curl) conforming finite element spaces such as the families of Raviart-Thomas, Brezzi-Douglas-Marini and Nedelec are supported on triangles and tetrahedra. Upcoming versions will also support Hermite and nonconforming elements

py-fenics-instant

Homepage:
Spack package:
Versions:
2017.2.0, 2016.2.0
Build Dependencies:
python, py-pip, py-wheel, py-six, py-subprocess32, py-setuptools, py-numpy, swig
Run Dependencies:
python, py-six, py-subprocess32, py-numpy, cmake, swig
Description:
Instant is a Python module that allows for instant inlining of C and C++ code in Python. It is a small Python module built on top of SWIG and Distutils. Instant has been retired after 2017.2.0 release. It is no longer needed in FEniCS and hence no longer maintained and tested.

py-fenics-ufl

Homepage:
Spack package:
Versions:
main, 2022.1.0, 2021.1.0, 2019.1.0, 2018.1.0, 2017.2.0.post0, 2017.2.0, 2017.1.0.post1, 2016.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
The Unified Form Language (UFL) is a domain specific language for declaration of finite element discretizations of variational forms. More precisely, it defines a flexible interface for choosing finite element spaces and defining expressions for weak forms in a notation close to mathematical notation.

py-filelock

Homepage:
Spack package:
Versions:
3.5.0, 3.4.0, 3.0.12, 3.0.4, 3.0.3, 3.0.0, 2.0.13, 2.0.12, 2.0.11, 2.0.10, 2.0.9, 2.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
A platform-independent file lock for Python. This package contains a single module, which implements a platform independent file lock in Python, which provides a simple way of inter-process communication

py-filemagic

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, file
Description:
A Python API for libmagic, the library behind the Unix file command

py-filterpy

Homepage:
Spack package:
Versions:
1.4.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib
Description:
This library provides Kalman filtering and various related optimal and non-optimal filtering software written in Python.

py-findlibs

Homepage:
Spack package:
Versions:
0.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A package to search for shared libraries on various platforms.

py-fiona

Homepage:
Spack package:
Versions:
master, 1.8.21, 1.8.20, 1.8.18, 1.8.6, 1.7.12
Build Dependencies:
python, py-pip, py-wheel, gdal, py-cython, py-attrs, py-certifi, py-click, py-cligj, py-click-plugins, py-six, py-munch, py-setuptools, py-argparse, py-ordereddict, py-enum34
Link Dependencies:
python, gdal
Run Dependencies:
python, gdal, py-attrs, py-certifi, py-click, py-cligj, py-click-plugins, py-six, py-munch, py-setuptools, py-argparse, py-ordereddict, py-enum34
Description:
Fiona reads and writes spatial data files.

py-fire

Homepage:
Spack package:
Versions:
0.4.0, 0.3.1, 0.3.0, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-termcolor, py-enum34
Run Dependencies:
python, py-six, py-termcolor, py-enum34
Description:
Python Fire is a library for automatically generating command line interfaces (CLIs) with a single line of code.

py-fiscalyear

Homepage:
Spack package:
Versions:
master, 0.4.0, 0.3.2, 0.3.1, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
fiscalyear is a small, lightweight Python module providing helpful utilities for managing the fiscal calendar. It is designed as an extension of the built-in datetime and calendar modules, adding the ability to query the fiscal year, fiscal quarter, fiscal month, and fiscal day of a date or datetime object.

py-fisher

Homepage:
Spack package:
Versions:
0.1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Fisher's Exact Test. Simple, fast implementation of Fisher's exact test.

py-fits-tools

Homepage:
Spack package:
Versions:
1.1.2, 1.1.1, 1.1, 1.0, 0.4.1, 0.4, 0.2, 0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-astropy, py-astropy-helpers, py-scipy, py-numpy
Link Dependencies:
py-astropy, py-astropy-helpers, py-scipy, py-numpy
Run Dependencies:
python
Description:
Tools for manipulating FITS images using primarily scipy & native python routines

py-fixtures

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Fixtures, reusable state for writing clean tests and more.

py-flake8

Homepage:
Spack package:
Versions:
4.0.1, 4.0.0, 3.9.2, 3.8.2, 3.7.8, 3.7.7, 3.5.0, 3.0.4, 2.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pycodestyle, py-pyflakes, py-entrypoints, py-mccabe, py-importlib-metadata, py-enum34, py-typing, py-configparser, py-functools32
Run Dependencies:
python, py-setuptools, py-pycodestyle, py-pyflakes, py-entrypoints, py-mccabe, py-importlib-metadata, py-enum34, py-typing, py-configparser, py-functools32
Description:
Flake8 is a wrapper around PyFlakes, pep8 and Ned Batchelder's McCabe script.

py-flake8-import-order

Homepage:
Spack package:
Versions:
0.18.1
Build Dependencies:
python, py-pip, py-wheel, py-enum34, py-pycodestyle, py-setuptools
Run Dependencies:
python, py-enum34, py-pycodestyle, py-setuptools
Description:
Flake8 and pylama plugin that checks the ordering of import statements.

py-flake8-polyfill

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flake8
Run Dependencies:
python, py-flake8
Description:
flake8-polyfill is a package that provides some compatibility helpers for Flake8 plugins that intend to support Flake8 2.x and 3.x simultaneously.

py-flameprof

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Flamegraph generator for python's cProfile stats.

py-flask

Homepage:
Spack package:
Versions:
2.0.2, 1.1.2, 1.1.1, 0.12.4, 0.12.2, 0.12.1, 0.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-werkzeug, py-jinja2, py-itsdangerous, py-click
Run Dependencies:
python, py-setuptools, py-werkzeug, py-jinja2, py-itsdangerous, py-click
Description:
A simple framework for building complex web applications.

py-flask-babel

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-babel, py-pytz, py-jinja2
Run Dependencies:
python, py-flask, py-babel, py-pytz, py-jinja2
Description:
Implements i18n and l10n support for Flask.

py-flask-compress

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask
Run Dependencies:
python, py-flask
Description:
Flask-Compress allows you to easily compress your Flask application's responses with gzip.

py-flask-cors

Homepage:
Spack package:
Versions:
3.0.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-six
Run Dependencies:
python, py-flask, py-six
Description:
A Flask extension for handling Cross Origin Resource Sharing (CORS), making cross-origin AJAX possible.

py-flask-restful

Homepage:
Spack package:
Versions:
0.3.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-aniso8601, py-flask, py-six, py-pytz
Run Dependencies:
python, py-aniso8601, py-flask, py-six, py-pytz
Description:
Simple framework for creating REST APIs

py-flask-socketio

Homepage:
Spack package:
Versions:
2.9.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-python-socketio, py-werkzeug
Run Dependencies:
python, py-flask, py-python-socketio, py-werkzeug
Description:
Flask-SocketIO gives Flask applications access to low latency bi- directional communications between the clients and the server. The client-side application can use any of the SocketIO official clients libraries in Javascript, C++, Java and Swift, or any compatible client to establish a permanent connection to the server.

py-flatbuffers

Homepage:
Spack package:
Versions:
2.0, 1.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The FlatBuffers serialization format implemented in Python. For a faster and feature-complete version check out the C++ implementation in `flatbuffers` package.

py-flatten-dict

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pathlib2
Run Dependencies:
python, py-six, py-pathlib2
Description:
A flexible utility for flattening and unflattening dict-lik objects in Python

py-flawfinder

Homepage:
Spack package:
Versions:
2.0.19
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
a program that examines source code looking for security weaknesses

py-flexmock

Homepage:
Spack package:
Versions:
0.10.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
flexmock is a testing library for Python that makes it easy to create mocks,stubs and fakes. Its API is inspired by a Ruby library of the same name. However, it is not a goal of Python flexmock to be a clone of the Ruby version. Instead, the focus is on providing full support for testing Python programs and making the creation of fake objects as unobtrusive as possible.

py-flexx

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tornado
Run Dependencies:
python, py-tornado
Description:
Write desktop and web apps in pure Python.

py-flit

Homepage:
Spack package:
Versions:
3.6.0, 3.3.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-requests, py-docutils, py-tomli, py-tomli-w, py-toml
Run Dependencies:
python, py-flit-core, py-requests, py-docutils, py-tomli, py-tomli-w, py-toml
Description:
Flit is a simple way to put Python packages and modules on PyPI.

py-flit-core

Homepage:
Spack package:
Versions:
3.6.0, 3.5.1, 3.5.0, 3.4.0, 3.3.0, 3.2.0, 3.1.0, 3.0.0, 2.3.0
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python, py-tomli, py-toml, py-pytoml
Description:
Distribution-building parts of Flit.

py-flufl-lock

Homepage:
Spack package:
Versions:
5.0.4, 5.0.3, 3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-atpublic, py-psutil, py-typing-extensions
Run Dependencies:
python, py-atpublic, py-psutil, py-typing-extensions
Description:
NFS-safe file locking with timeouts for POSIX and Windows

py-flye

Homepage:
Spack package:
Versions:
2.6, 2.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, gmake, zlib
Link Dependencies:
zlib
Run Dependencies:
python
Description:
Fast and accurate de novo assembler for single molecule sequencing reads

py-fn-py

Homepage:
Spack package:
Versions:
0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Functional programming in Python: implementation of missing features to enjoy FP.

py-fonttools

Homepage:
Spack package:
Versions:
4.31.2, 4.29.1, 4.28.1, 4.26.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
fontTools is a library for manipulating fonts, written in Python. The project includes the TTX tool, that can convert TrueType and OpenType fonts to and from an XML text format, which is also called TTX. It supports TrueType, OpenType, AFM and to an extent Type 1 and some Mac- specific formats.

py-formatizer

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Literal string formatting for Python versions older than 3.6.

py-formulaic

Homepage:
Spack package:
Versions:
0.2.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setupmeta, py-astor, py-interface-meta, py-numpy, py-pandas, py-scipy, py-wrapt
Run Dependencies:
python, py-astor, py-interface-meta, py-numpy, py-pandas, py-scipy, py-wrapt
Description:
Formulaic is a high-performance implementation of Wilkinson formulas for Python.

py-fortran-language-server

Homepage:
Spack package:
Versions:
1.12.0, 1.11.1
Build Dependencies:
python, py-pip, py-wheel, py-future, py-argparse, py-setuptools
Run Dependencies:
python, py-future, py-argparse
Description:
A Fortran implementation of the Language Server Protocol using Python (2.7+ or 3.0+).

py-fortranformat

Homepage:
Spack package:
Versions:
0.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Mimics Fortran textual IO in Python

py-fparser

Homepage:
Spack package:
Versions:
develop, 0.0.6, 0.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-nose, py-six
Run Dependencies:
python, py-numpy
Test Dependencies:
py-pytest
Description:
Parser for Fortran 77..2003 code.

py-fprettify

Homepage:
Spack package:
Versions:
0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-configargparse
Run Dependencies:
python, py-configargparse
Description:
fprettify is an auto-formatter for modern Fortran code (Fortran 90 and later) that imposes strict whitespace formatting, written in Python.

py-fracridge

Homepage:
Spack package:
Versions:
1.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-scikit-learn, py-numba, pil
Run Dependencies:
python, py-setuptools-scm, py-scikit-learn, py-numba, pil
Description:
Fractional Ridge Regression.

py-freezegun

Homepage:
Spack package:
Versions:
0.3.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-python-dateutil
Run Dependencies:
python, py-six, py-python-dateutil
Description:
FreezeGun is a library that allows your Python tests to travel through time by mocking the datetime module.

py-frozenlist

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A list-like structure which implements collections.abc.MutableSequence.

py-fs

Homepage:
Spack package:
Versions:
2.4.14, 0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-appdirs, py-pytz, py-six, py-enum34, py-typing, py-backports-os
Run Dependencies:
python, py-appdirs, py-pytz, py-six, py-enum34, py-typing, py-backports-os
Description:
Python's filesystem abstraction layer

py-fsspec

Homepage:
Spack package:
Versions:
2021.7.0, 2021.4.0, 0.9.0, 0.8.0, 0.7.3, 0.4.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-aiohttp
Run Dependencies:
python, py-requests, py-aiohttp
Description:
A specification for pythonic filesystems.

py-ftfy

Homepage:
Spack package:
Versions:
6.0.3, 5.8, 4.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-html5lib, py-wcwidth
Run Dependencies:
python, py-html5lib, py-wcwidth
Description:
Fixes Unicode that's broken in various ways.

py-funcsigs

Homepage:
Spack package:
Versions:
1.0.2, 0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python function signatures from PEP362 for Python 2.6, 2.7 and 3.2.

py-functools32

Homepage:
Spack package:
Versions:
3.2.3-2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Backport of the functools module from Python 3.2.3 for use on 2.7 and PyPy.

py-funcy

Homepage:
Spack package:
Versions:
1.15, 1.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A collection of fancy functional tools focused on practicality

py-fury

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, vtk, pil
Run Dependencies:
python, py-numpy, py-scipy, vtk, pil
Test Dependencies:
py-codecov, py-coverage, py-flake8, py-pytest
Description:
Free Unified Rendering in Python.

py-fusepy

Homepage:
Spack package:
Versions:
3.0.1, 2.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, fuse
Link Dependencies:
fuse
Run Dependencies:
python
Description:
Fusepy is a Python module that provides a simple interface to FUSE and MacFUSE. It's just one file and is implemented using ctypes.

py-future

Homepage:
Spack package:
Versions:
0.18.2, 0.17.1, 0.17.0, 0.16.0, 0.15.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib, py-argparse
Run Dependencies:
python, py-importlib, py-argparse
Description:
Clean single-source support for Python 3 and 2

py-futures

Homepage:
Spack package:
Versions:
3.3.0, 3.2.0, 3.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Backport of the concurrent.futures package from Python 3.2

py-fuzzywuzzy

Homepage:
Spack package:
Versions:
0.18.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-levenshtein
Run Dependencies:
python, py-python-levenshtein
Description:
Fuzzy string matching in python.

py-fypp

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python powered Fortran preprocessor.

py-gast

Homepage:
Spack package:
Versions:
0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.0, 0.3.3, 0.3.2, 0.2.2, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python AST that abstracts the underlying Python version

py-gcovr

Homepage:
Spack package:
Versions:
4.2
Build Dependencies:
python, py-pip, py-wheel, py-jinja2, py-lxml, py-setuptools
Run Dependencies:
python, py-jinja2, py-lxml, py-setuptools
Description:
Gcovr provides a utility for managing the use of the GNU gcov utility and generating summarized code coverage results. This command is inspired by the Python coverage.py package, which provides a similar utility for Python.

py-gcs-oauth2-boto-plugin

Homepage:
Spack package:
Versions:
2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-rsa, py-boto, py-google-auth, py-httplib2, py-oauth2client, py-pyopenssl, py-retry-decorator, py-six
Run Dependencies:
python, py-rsa, py-boto, py-google-auth, py-httplib2, py-oauth2client, py-pyopenssl, py-retry-decorator, py-six
Description:
Auth plugin allowing use the use of OAuth 2.0 credentials for Google Cloud Storage in the Boto library.

py-gdbgui

Homepage:
Spack package:
Versions:
0.13.2.0, 0.11.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-flask-compress, py-flask-socketio, py-gevent, py-pygdbmi, py-pygments
Run Dependencies:
python, py-setuptools, py-flask, py-flask-compress, py-flask-socketio, py-gevent, py-pygdbmi, py-pygments, gdb
Description:
gdbgui is a modern, free, browser-based frontend to gdb

py-gdc-client

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The gdc-client provides several convenience functions over the GDC API which provides general download/upload via HTTPS.

py-gemini

Homepage:
Spack package:
Versions:
0.30.2, 0.30.1, 0.30.0, 0.20.1, 0.20.0, 0.19.1, 0.19.0, 0.18.3, 0.18.2, 0.18.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, tabix, grabix, bedtools2, py-numpy, py-inheritance, py-geneimpacts, py-cython, py-sqlalchemy, py-pysam, py-cyvcf2, py-pyyaml, py-pybedtools, py-jinja2, py-networkx, py-bottle, py-ipyparallel, py-ipython-cluster-helper, py-bx-python, py-pandas, py-openpyxl, py-scipy, py-unidecode, py-cyordereddict, py-bcolz, py-numexpr
Run Dependencies:
python, tabix, grabix, bedtools2, py-numpy, py-inheritance, py-geneimpacts, py-cython, py-sqlalchemy, py-pysam, py-cyvcf2, py-pyyaml, py-pybedtools, py-jinja2, py-networkx, py-bottle, py-ipyparallel, py-ipython-cluster-helper, py-bx-python, py-pandas, py-openpyxl, py-scipy, py-unidecode, py-cyordereddict, py-bcolz, py-numexpr
Description:
GEMINI (GEnome MINIng) is a flexible framework for exploring genetic variation in the context of the wealth of genome annotations available for the human genome.

py-genders

Homepage:
Spack package:
Versions:
1.22
Build Dependencies:
python, bison
Run Dependencies:
python
Description:
Genders is a static cluster configuration database used for cluster configuration management. It is used by a variety of tools and scripts for management of large clusters.

py-geneimpacts

Homepage:
Spack package:
Versions:
0.3.7, 0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Given multiple snpEff or VEP or BCFTools consequence annotations for a single variant, get an orderable python object for each annotation.

py-genshi

Homepage:
Spack package:
Versions:
0.7, 0.6.1, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python toolkit for generation of output for the web

py-gensim

Homepage:
Spack package:
Versions:
3.8.3, 3.8.1, 3.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six, py-smart-open
Run Dependencies:
python, py-numpy, py-scipy, py-six, py-smart-open
Description:
Gensim is a Python library for topic modelling, document indexing and similarity retrieval with large corpora. Target audience is the natural language processing (NLP) and information retrieval (IR) community.

py-geoalchemy2

Homepage:
Spack package:
Versions:
0.6.3, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sqlalchemy, py-shapely
Run Dependencies:
python, py-sqlalchemy, py-shapely
Description:
Using SQLAlchemy with Spatial Databases

py-geocube

Homepage:
Spack package:
Versions:
0.3.1, 0.0.17
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-appdirs, py-click, py-datacube, py-geopandas, py-odc-geo, py-rasterio, py-rioxarray, py-scipy, py-xarray, py-pyproj, py-numpy
Run Dependencies:
python, py-appdirs, py-click, py-datacube, py-geopandas, py-odc-geo, py-rasterio, py-rioxarray, py-scipy, py-xarray, py-pyproj, py-numpy
Description:
Tool to convert geopandas vector data into rasterized xarray data.

py-geographiclib

Homepage:
Spack package:
Versions:
1.50
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The geodesic routines from GeographicLib.

py-geopandas

Homepage:
Spack package:
Versions:
master, 0.10.2, 0.10.1, 0.10.0, 0.9.0, 0.8.2, 0.8.1, 0.5.0, 0.4.0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pandas, py-shapely, py-fiona, py-pyproj
Run Dependencies:
python, py-pandas, py-shapely, py-fiona, py-pyproj
Description:
GeoPandas is an open source project to make working with geospatial data in python easier. GeoPandas extends the datatypes used by pandas to allow spatial operations on geometric types. Geometric operations are performed by shapely. Geopandas further depends on fiona for file access and descartes and matplotlib for plotting.

py-geoplot

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-seaborn, py-pandas, py-geopandas, py-cartopy, py-descartes, py-mapclassify, py-contextily
Run Dependencies:
python, py-matplotlib, py-seaborn, py-pandas, py-geopandas, py-cartopy, py-descartes, py-mapclassify, py-contextily
Description:
geoplot is a high-level Python geospatial plotting library. It's an extension to cartopy and matplotlib which makes mapping easy: like seaborn for geospatial.

py-geopy

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-geographiclib
Run Dependencies:
python, py-geographiclib
Description:
geopy is a Python client for several popular geocoding web services.

py-getorganelle

Homepage:
Spack package:
Versions:
1.7.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-sympy, py-requests
Run Dependencies:
python, py-numpy, py-scipy, py-sympy, py-requests, bowtie2, spades, blast-plus
Description:
Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)

py-gevent

Homepage:
Spack package:
Versions:
21.12.0, 21.8.0, 1.5.0, 1.3a2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-cffi, py-greenlet, py-zope-event, py-zope-interface
Run Dependencies:
python, py-setuptools, py-cffi, py-greenlet, py-zope-event, py-zope-interface
Description:
gevent is a coroutine-based Python networking library.

py-gf256

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi
Run Dependencies:
python, py-cffi
Description:
GF256 is an implementation of GF(2**8). This Galois Field allows you to perform finite field arithmetic on byte sized integers.

py-gffutils

Homepage:
Spack package:
Versions:
0.10.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyfaidx, py-six, py-argh, py-argcomplete, py-simplejson
Run Dependencies:
python, py-pyfaidx, py-six, py-argh, py-argcomplete, py-simplejson
Description:
GFF and GTF file manipulation and interconversion gffutils is a Python package for working with and manipulating the GFF and GTF format files typically used for genomic annotations. Files are loaded into a sqlite3 database, allowing much more complex manipulation of hierarchical features (e.g., genes, transcripts, and exons) than is possible with plain-text methods alone.

py-gimmik

Homepage:
Spack package:
Versions:
2.3, 2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-mako
Run Dependencies:
python, py-numpy, py-mako
Description:
Generator of Matrix Multiplication Kernels - GiMMiK - is a tool for generation of high performance matrix multiplication kernel code. for various accelerator platforms.

py-gin-config

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Gin provides a lightweight configuration framework for Python, based on dependency injection.

py-git-review

Homepage:
Spack package:
Versions:
2.1.0, 2.0.0, 1.28.0, 1.27.0, 1.26.0, 1.25.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-six, py-requests
Run Dependencies:
python, py-six, py-requests, git
Description:
git-review is a tool that helps submitting git branches to gerrit

py-gitdb

Homepage:
Spack package:
Versions:
4.0.9, 4.0.8, 4.0.7, 4.0.6, 4.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-smmap
Run Dependencies:
python, py-smmap
Description:
The GitDB project implements interfaces to allow read and write access to git repositories.

py-gitpython

Homepage:
Spack package:
Versions:
3.1.24, 3.1.23, 3.1.22, 3.1.20, 3.1.19, 3.1.18, 3.1.17, 3.1.16, 3.1.15, 3.1.14, 3.1.13, 3.1.12, 3.1.11, 3.1.10, 3.1.9, 3.1.8, 3.1.7, 3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.9, 0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-gitdb, py-typing-extensions
Run Dependencies:
python, py-gitdb, py-typing-extensions
Description:
GitPython is a python library used to interact with Git repositories.

py-glmnet

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scikit-learn, py-scipy, py-joblib
Run Dependencies:
python, py-numpy, py-scikit-learn, py-scipy, py-joblib
Description:
This is a Python wrapper for the fortran library used in the R package glmnet.

py-glob2

Homepage:
Spack package:
Versions:
0.7, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Version of the glob module that can capture patterns and supports recursive wildcards.

py-globus-sdk

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-pyjwt, py-cryptography
Run Dependencies:
python, py-requests, py-pyjwt, py-cryptography
Description:
Globus SDK for Python

py-gluoncv

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-tqdm, py-requests, py-matplotlib, py-portalocker, pil, py-scipy, py-cython
Run Dependencies:
python, py-numpy, py-tqdm, py-requests, py-matplotlib, py-portalocker, pil, py-scipy
Description:
GluonCV provides implementations of state-of-the-art (SOTA) deep learning algorithms in computer vision. It aims to help engineers, researchers, and students quickly prototype products, validate new ideas and learn computer vision.

py-gnuplot

Homepage:
Spack package:
Versions:
1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Gnuplot.py is a Python package that allows you to create graphs from within Python using the gnuplot plotting program.

py-goatools

Homepage:
Spack package:
Versions:
0.7.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nose, py-numpy, py-pandas, py-pydot, py-pyparsing, py-pytest, py-scipy, py-statsmodels, py-xlrd, py-xlsxwriter
Run Dependencies:
python, py-nose, py-numpy, py-pandas, py-pydot, py-pyparsing, py-pytest, py-scipy, py-statsmodels, py-xlrd, py-xlsxwriter
Description:
Python scripts to find enrichment of GO terms

py-gooey

Homepage:
Spack package:
Versions:
1.0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pillow, py-psutil, py-colored, py-pygtrie, py-wxpython
Link Dependencies:
py-wxpython
Run Dependencies:
python, py-pillow, py-psutil, py-colored, py-pygtrie
Description:
Turn (almost) any command line program into a full GUI application with one line

py-google

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-beautifulsoup4
Run Dependencies:
python, py-beautifulsoup4
Description:
Python bindings to the Google search engine.

py-google-api-python-client

Homepage:
Spack package:
Versions:
1.7.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-httplib2, py-google-auth, py-google-auth-httplib2, py-six, py-uritemplate
Run Dependencies:
python, py-httplib2, py-google-auth, py-google-auth-httplib2, py-six, py-uritemplate
Description:
The Google API Client for Python is a client library for accessing the Plus, Moderator, and many other Google APIs.

py-google-apitools

Homepage:
Spack package:
Versions:
0.5.32
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-httplib2, py-fasteners, py-oauth2client, py-six
Run Dependencies:
python, py-httplib2, py-fasteners, py-oauth2client, py-six
Description:
client libraries for humans

py-google-auth

Homepage:
Spack package:
Versions:
2.3.2, 1.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyasn1-modules, py-rsa, py-six, py-cachetools, py-enum34
Run Dependencies:
python, py-pyasn1-modules, py-rsa, py-six, py-cachetools, py-enum34
Description:
This library simplifies using Google's various server-to-server authentication mechanisms to access Google APIs.

py-google-auth-httplib2

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-auth, py-httplib2
Run Dependencies:
python, py-google-auth, py-httplib2
Description:
Google Authentication Library: httplib2 transport.

py-google-auth-oauthlib

Homepage:
Spack package:
Versions:
0.4.6, 0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-auth, py-requests-oauthlib
Run Dependencies:
python, py-google-auth, py-requests-oauthlib
Description:
This library provides oauthlib integration with google-auth.

py-google-cloud-core

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-api-core
Run Dependencies:
python, py-google-api-core
Description:
Google Cloud API client core library.

py-google-cloud-storage

Homepage:
Spack package:
Versions:
1.18.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-auth, py-google-cloud-core, py-google-resumable-media
Run Dependencies:
python, py-google-auth, py-google-cloud-core, py-google-resumable-media
Description:
Google Cloud Storage API client library.

py-google-crc32c

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, google-crc32c
Run Dependencies:
python, google-crc32c
Description:
This package wraps the google/crc32c hardware-based implementation of the CRC32C hashing algorithm.

py-google-pasta

Homepage:
Spack package:
Versions:
0.2.0, 0.1.8, 0.1.7, 0.1.6, 0.1.5, 0.1.4, 0.1.3, 0.1.2, 0.1.1, 0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
pasta is an AST-based Python refactoring library.

py-google-resumable-media

Homepage:
Spack package:
Versions:
0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Utilities for Google Media Downloads and Resumable Uploads.

py-googleapis-common-protos

Homepage:
Spack package:
Versions:
1.55.0, 1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-protobuf
Run Dependencies:
python, py-protobuf
Description:
Common protobufs used in Google APIs.

py-googledrivedownloader

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Minimal class to download shared files from Google Drive.

py-gosam

Homepage:
Spack package:
Versions:
2.1.1, 2.0.4, 2.0.3
Build Dependencies:
python
Link Dependencies:
gosam-contrib
Run Dependencies:
python, form, qgraf
Description:
The package GoSam allows for the automated calculation of one-loop amplitudes for multi-particle processes in renormalizable quantum field theories.

py-gpaw

Homepage:
Spack package:
Versions:
21.1.0, 20.10.0, 20.1.0, 19.8.1, 1.3.0
Build Dependencies:
python, py-pip, py-wheel, mpi, py-setuptools, py-ase, py-numpy, py-scipy, libxc, blas, lapack, fftw, scalapack, libvdwxc
Link Dependencies:
mpi, libxc, blas, lapack, fftw, scalapack, libvdwxc
Run Dependencies:
python, mpi, py-ase, py-numpy, py-scipy
Description:
GPAW is a density-functional theory (DFT) Python code based on the projector-augmented wave (PAW) method and the atomic simulation environment (ASE).

py-gpustat

Homepage:
Spack package:
Versions:
1.0.0b1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-six, py-nvidia-ml-py, py-nvidia-ml-py3, py-psutil, py-blessings, py-blessed
Run Dependencies:
python, py-six, py-nvidia-ml-py, py-nvidia-ml-py3, py-psutil, py-blessings, py-blessed
Description:
An utility to monitor NVIDIA GPU status and usage.

py-gputil

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
GPUtil is a Python module for getting the GPU status from NVIDA GPUs using nvidia-smi.

py-gpy

Homepage:
Spack package:
Versions:
1.9.9, 0.8.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six, py-paramz, py-cython
Run Dependencies:
python, py-numpy, py-scipy, py-six, py-paramz
Description:
The Gaussian Process Toolbox.

py-gpyopt

Homepage:
Spack package:
Versions:
1.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-gpy
Run Dependencies:
python, py-numpy, py-scipy, py-gpy
Description:
Performs global optimization with different acquisition functions. Among other functionalities, it is possible to use GPyOpt to optimize physical experiments (sequentially or in batches) and tune the parameters of Machine Learning algorithms. It is able to handle large data sets via sparse Gaussian process models.

py-gpytorch

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch, py-scikit-learn, py-scipy
Run Dependencies:
python, py-torch, py-scikit-learn, py-scipy
Description:
GPyTorch is a Gaussian process library implemented using PyTorch. GPyTorch is designed for creating scalable, flexible, and modular Gaussian process models with ease.

py-gql

Homepage:
Spack package:
Versions:
3.0.0a1, 0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-aiohttp, py-graphql-core, py-requests, py-websockets, py-yarl, py-six, py-promise
Run Dependencies:
python, py-aiohttp, py-graphql-core, py-requests, py-websockets, py-yarl, py-six, py-promise
Description:
This is a GraphQL client for Python. Plays nicely with graphene, graphql-core, graphql-js and any other GraphQL implementation compatible with the spec. GQL architecture is inspired by React-Relay and Apollo- Client.

py-grandalf

Homepage:
Spack package:
Versions:
0.7, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-pyparsing, py-pytest-runner, py-setuptools
Run Dependencies:
python, py-pyparsing
Description:
Grandalf is a Python package made for experimentations with graph drawing algorithms.

py-graphql-core

Homepage:
Spack package:
Versions:
3.1.2, 3.0.5, 2.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
GraphQL-core 3 is a Python 3.6+ port of GraphQL.js, the JavaScript reference implementation for GraphQL, a query language for APIs created by Facebook.

py-graphviz

Homepage:
Spack package:
Versions:
0.13.2, 0.13, 0.12, 0.11.1, 0.10.1, 0.8.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tox, py-flake8, py-pep8-naming, py-twine, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
python, py-wheel, py-tox, py-flake8, py-pep8-naming, py-twine, py-sphinx, py-sphinx-rtd-theme
Description:
Simple Python interface for Graphviz

py-greenlet

Homepage:
Spack package:
Versions:
1.1.2, 1.1.0, 0.4.17, 0.4.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Lightweight in-process concurrent programming

py-grequests

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-gevent, py-requests
Run Dependencies:
python, py-gevent, py-requests
Description:
GRequests allows you to use Requests with Gevent to make asynchronous HTTP Requests easily. Note: You should probably use requests-threads or requests-futures instead.

py-griddataformats

Homepage:
Spack package:
Versions:
0.5.0, 0.4.1, 0.4.0, 0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-six
Link Dependencies:
python
Run Dependencies:
python, py-numpy, py-six
Description:
The gridDataFormats package provides classes to unify reading and writing n-dimensional datasets. One can read grid data from files, make them available as a Grid object, and write out the data again.

py-grpcio

Homepage:
Spack package:
Versions:
1.43.0, 1.42.0, 1.39.0, 1.38.1, 1.38.0, 1.37.1, 1.37.0, 1.36.0, 1.35.0, 1.34.1, 1.34.0, 1.33.2, 1.33.1, 1.32.0, 1.30.0, 1.29.0, 1.28.1, 1.27.2, 1.25.0, 1.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-futures, py-enum34, py-cython, openssl, zlib, c-ares, re2
Link Dependencies:
python, openssl, zlib, c-ares, re2
Run Dependencies:
python, py-six, py-futures, py-enum34
Description:
HTTP/2-based RPC framework.

py-grpcio-tools

Homepage:
Spack package:
Versions:
1.42.0, 1.39.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-protobuf, py-grpcio, py-cython, openssl, zlib, c-ares, re2
Link Dependencies:
openssl, zlib, c-ares, re2
Run Dependencies:
python, py-protobuf, py-grpcio
Description:
Protobuf code generator for gRPC

py-gsd

Homepage:
Spack package:
Versions:
1.9.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy
Run Dependencies:
python, py-numpy
Description:
The GSD file format is the native file format for HOOMD-blue. GSD files store trajectories of the HOOMD-blue system state in a binary file with efficient random access to frames. GSD allows all particle and topology properties to vary from one frame to the next. Use the GSD Python API to specify the initial condition for a HOOMD-blue simulation or analyze trajectory output with a script. Read a GSD trajectory with a visualization tool to explore the behavior of the simulation.

py-gsi

Homepage:
Spack package:
Versions:
0.6.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
openssl
Run Dependencies:
python, py-setuptools
Description:
Python interface for GSI authentication

py-guidata

Homepage:
Spack package:
Versions:
1.7.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyqt5, py-spyder
Run Dependencies:
python, py-pyqt5, py-spyder
Description:
Automatic graphical user interfaces generation for easy dataset editing and display

py-guiqwt

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-guidata, py-pythonqwt, pil
Run Dependencies:
python, py-numpy, py-scipy, py-guidata, py-pythonqwt, pil
Description:
guiqwt is a set of tools for curve and image plotting (extension to PythonQwt)

py-gym

Homepage:
Spack package:
Versions:
0.18.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-numpy, py-pyglet, pil, py-cloudpickle
Run Dependencies:
python, py-scipy, py-numpy, py-pyglet, pil, py-cloudpickle
Description:
OpenAI Gym is a toolkit for developing and comparing reinforcement learning algorithms. This is the gym open-source library, which gives you access to a standardized set of environments.

py-h11

Homepage:
Spack package:
Versions:
0.13.0, 0.12.0, 0.11.0, 0.10.0, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses, py-typing-extensions
Run Dependencies:
python, py-dataclasses, py-typing-extensions
Description:
A pure-Python, bring-your-own-I/O implementation of HTTP/1.1

py-h2

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-hyperframe, py-hpack, py-enum34
Run Dependencies:
python, py-hyperframe, py-hpack, py-enum34
Description:
HTTP/2 State-Machine based protocol implementation

py-h5glance

Homepage:
Spack package:
Versions:
0.6, 0.5, 0.4
Build Dependencies:
python, py-pip, py-wheel, py-flit, py-h5py, py-htmlgen
Run Dependencies:
python, py-h5py, py-htmlgen
Description:
H5Glance lets you explore HDF5 files in the terminal or an HTML interface.

py-h5netcdf

Homepage:
Spack package:
Versions:
0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-h5py
Run Dependencies:
python, py-h5py
Description:
A Python interface for the netCDF4 file-format that reads and writes local or remote HDF5 files directly via h5py or h5pyd, without relying on the Unidata netCDF library.

py-h5py

Homepage:
Spack package:
Versions:
master, 3.6.0, 3.5.0, 3.4.0, 3.3.0, 3.2.1, 3.2.0, 3.1.0, 3.0.0, 2.10.0, 2.9.0, 2.8.0, 2.7.1, 2.7.0, 2.6.0, 2.5.0, 2.4.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-pkgconfig, py-setuptools, py-cached-property, py-numpy, py-six, hdf5, mpi, py-mpi4py
Link Dependencies:
hdf5, mpi
Run Dependencies:
python, py-cached-property, py-numpy, py-six, py-mpi4py
Description:
The h5py package provides both a high- and low-level interface to the HDF5 library from Python.

py-h5sh

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-h5py, py-numpy, py-prompt-toolkit, py-pygments, py-six
Run Dependencies:
python, py-setuptools, py-h5py, py-numpy, py-prompt-toolkit, py-pygments, py-six
Description:
Shell-like environment for HDF5.

py-hacking

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
OpenStack Hacking Guideline Enforcement.

py-hatchet

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy, py-pandas, py-pydot, py-pyyaml
Run Dependencies:
python, py-matplotlib, py-numpy, py-pandas, py-pydot, py-pyyaml
Description:
Hatchet is a performance tool for analyzing hierarchical performance data using a graph-indexed Pandas dataframe.

py-hdbscan

Homepage:
Spack package:
Versions:
0.8.26
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-six
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-six
Description:
HDBSCAN - Hierarchical Density-Based Spatial Clustering of Applications with Noise. Performs DBSCAN over varying epsilon values and integrates the result to find a clustering that gives the best stability over epsilon. This allows HDBSCAN to find clusters of varying densities (unlike DBSCAN), and be more robust to parameter selection. In practice this means that HDBSCAN returns a good clustering straight away with little or no parameter tuning -- and the primary parameter, minimum cluster size, is intuitive and easy to select. HDBSCAN is ideal for exploratory data analysis; it's a fast and robust algorithm that you can trust to return meaningful clusters (if there are any).

py-hdfs

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docopt, py-requests, py-six
Run Dependencies:
python, py-docopt, py-requests, py-six
Description:
API and command line interface for HDFS

py-healpy

Homepage:
Spack package:
Versions:
1.14.0, 1.13.0, 1.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pkgconfig, py-numpy, py-scipy, py-astropy, py-matplotlib, py-six, cfitsio, healpix-cxx
Run Dependencies:
python, py-numpy, py-scipy, py-astropy, py-matplotlib, py-six, cfitsio, healpix-cxx
Description:
healpy is a Python package to handle pixelated data on the sphere.

py-heapdict

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A heap with decrease-key and increase-key operations

py-hep-ml

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-theano, py-six
Run Dependencies:
python, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-theano, py-six
Description:
Machine Learning for High Energy Physics

py-hepdata-converter

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-hepdata-validator
Run Dependencies:
python, py-pyyaml, py-hepdata-validator
Description:
This Python 3 library provides support for converting Old HepData input format (sample) to YAML as well as YAML to ROOT, YODA and CSV.

py-hepdata-lib

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, root, py-numpy, py-pyyaml, py-future, py-six, py-pytest-runner, py-pytest-cov
Run Dependencies:
python, root, py-numpy, py-pyyaml, py-future, py-six
Description:
Library for getting your data into HEPData

py-hepdata-validator

Homepage:
Spack package:
Versions:
0.3.0, 0.2.3, 0.1.16, 0.1.15, 0.1.14, 0.1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jsonschema, py-pyyaml, py-requests
Run Dependencies:
python, py-jsonschema, py-pyyaml, py-requests
Description:
Validation schema and code for HEPdata submissions.

py-hepunits

Homepage:
Spack package:
Versions:
master, 2.1.1, 2.1.0, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-toml
Run Dependencies:
python
Description:
Units and constants in the HEP system of units.

py-hieroglyph

Homepage:
Spack package:
Versions:
2.1.0, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-six
Run Dependencies:
python, py-setuptools, py-sphinx, py-six
Description:
Hieroglyph is an extension for Sphinx which builds HTML presentations from ReStructured Text documents.

py-hiredis

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python extension that wraps protocol parsing code in hiredis. It primarily speeds up parsing of multi bulk replies.

py-histbook

Homepage:
Spack package:
Versions:
1.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Versatile, high-performance histogram toolkit for Numpy.

py-histogrammar

Homepage:
Spack package:
Versions:
1.0.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-tqdm, py-joblib
Run Dependencies:
python, py-numpy, py-tqdm, py-joblib
Description:
Composable histogram primitives for distributed data reduction.

py-histoprint

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-click, py-numpy, py-uhi
Run Dependencies:
python, py-click, py-numpy, py-uhi
Description:
Pretty print of NumPy (and other) histograms to the console

py-holland-backup

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-configobj
Run Dependencies:
python, py-setuptools, py-configobj
Description:
Holland is an Open Source backup framework originally developed by Rackspace and written in Python. Its goal is to help facilitate backing up databases with greater configurability, consistency, and ease. Holland currently focuses on MySQL, however future development will include other database platforms and even non-database related applications. Because of its plugin structure, Holland can be used to backup anything you want by whatever means you want.

py-horovod

Homepage:
Spack package:
Versions:
master, 0.21.3, 0.21.2, 0.21.1, 0.21.0, 0.20.3, 0.20.2, 0.20.1, 0.20.0, 0.19.5, 0.19.4, 0.19.3, 0.19.2, 0.19.1, 0.19.0, 0.18.2, 0.18.1, 0.18.0, 0.17.1, 0.17.0, 0.16.4, 0.16.3, 0.16.2
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, py-cloudpickle, py-psutil, py-pyyaml, py-six, py-dataclasses, py-tensorflow, py-tensorflow-estimator, py-torch, py-torchvision, py-cffi, mxnet, py-keras, py-h5py, py-numpy, py-petastorm, py-pyarrow, py-pyspark, py-ray, cmake, pkgconfig, mpi, libuv, nccl
Link Dependencies:
cuda, py-tensorflow, py-torch, mxnet, mpi, libuv, nccl
Run Dependencies:
python, py-cloudpickle, py-psutil, py-pyyaml, py-six, py-dataclasses, py-tensorflow, py-tensorflow-estimator, py-torch, py-torchvision, py-cffi, mxnet, py-keras, py-h5py, py-numpy, py-petastorm, py-pyarrow, py-pyspark, py-ray
Description:
Horovod is a distributed deep learning training framework for TensorFlow, Keras, PyTorch, and Apache MXNet.

py-hpack

Homepage:
Spack package:
Versions:
4.0.0, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pure-Python HPACK header compression

py-hpbandster

Homepage:
Spack package:
Versions:
0.7.4, 0.7.3, 0.7.2, 0.7.1, 0.7.0, 0.6.1, 0.6.0, 0.5.6
Build Dependencies:
python, py-pip, py-wheel, py-configspace, py-numpy, py-statsmodels, py-netifaces, py-scipy, py-serpent, py-pyro4, py-setuptools
Run Dependencies:
python, py-configspace, py-numpy, py-statsmodels, py-netifaces, py-scipy, py-serpent, py-pyro4
Description:
A distributed Hyperband implementation with lots of room for improvement

py-hpccm

Homepage:
Spack package:
Versions:
19.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, py-six
Run Dependencies:
python, py-setuptools, py-enum34, py-six
Description:
HPC Container Maker (HPCCM - pronounced H-P-see-M) is an open source tool to make it easier to generate container specification files.

py-hstspreload

Homepage:
Spack package:
Versions:
2020.9.23
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Chromium HSTS Preload list as a Python package and updated daily

py-html2text

Homepage:
Spack package:
Versions:
2016.9.19
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Turn HTML into equivalent Markdown-structured text.

py-html5lib

Homepage:
Spack package:
Versions:
099, 1.1, 1.0.1, 0.99
Build Dependencies:
python, py-pip, py-wheel, py-six, py-setuptools, py-webencodings
Run Dependencies:
python, py-six, py-webencodings
Description:
HTML parser based on the WHATWG HTML specification.

py-htmlgen

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library to generate HTML from classes.

py-htseq

Homepage:
Spack package:
Versions:
0.11.2, 0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pysam, py-matplotlib, py-cython, swig
Run Dependencies:
python, py-numpy, py-pysam, py-matplotlib, py-cython, swig
Description:
HTSeq is a Python package that provides infrastructure to process data from high-throughput sequencing assays.

py-httpbin

Homepage:
Spack package:
Versions:
0.7.0, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-markupsafe, py-decorator, py-itsdangerous, py-six, py-brotlipy, py-raven, py-werkzeug
Run Dependencies:
python, py-flask, py-markupsafe, py-decorator, py-itsdangerous, py-six, py-brotlipy, py-raven, py-werkzeug
Description:
HTTP Request and Response Service

py-httpcore

Homepage:
Spack package:
Versions:
0.14.7, 0.11.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sniffio, py-h11, py-anyio, py-certifi
Run Dependencies:
python, py-sniffio, py-h11, py-anyio, py-certifi
Description:
The HTTP Core package provides a minimal low-level HTTP client, which does one thing only. Sending HTTP requests.

py-httplib2

Homepage:
Spack package:
Versions:
0.18.0, 0.13.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A comprehensive HTTP client library.

py-httpretty

Homepage:
Spack package:
Versions:
1.1.4, 1.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
HTTP client mock for Python.

py-httpstan

Homepage:
Spack package:
Versions:
4.7.2, 4.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-poetry-core, py-aiohttp, py-appdirs, py-webargs, py-marshmallow, py-numpy, py-pybind11
Link Dependencies:
py-pybind11
Run Dependencies:
python, py-setuptools, py-aiohttp, py-appdirs, py-webargs, py-marshmallow, py-numpy
Description:
HTTP-based REST interface to Stan, a package for Bayesian inference.

py-httptools

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
httptools is a Python binding for the nodejs HTTP parser.

py-httpx

Homepage:
Spack package:
Versions:
0.15.2, 0.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-certifi, py-sniffio, py-httpcore, py-rfc3986
Link Dependencies:
py-certifi, py-sniffio, py-httpcore, py-rfc3986
Run Dependencies:
python
Description:
HTTPX is a fully featured HTTP client for Python 3, which provides sync and async APIs, and support for both HTTP/1.1 and HTTP/2.

py-huggingface-hub

Homepage:
Spack package:
Versions:
0.0.10, 0.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-filelock, py-requests, py-tqdm, py-typing-extensions, py-importlib-metadata
Run Dependencies:
python, py-filelock, py-requests, py-tqdm, py-typing-extensions, py-importlib-metadata
Description:
This library allows anyone to work with the Hub repositories: you can clone them, create them and upload your models to them.

py-humanfriendly

Homepage:
Spack package:
Versions:
8.2, 8.1, 4.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-monotonic
Run Dependencies:
python, py-monotonic
Description:
Human friendly output for text interfaces using Python

py-humanize

Homepage:
Spack package:
Versions:
4.0.0, 3.12.0, 0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-importlib-metadata
Run Dependencies:
python, py-setuptools, py-importlib-metadata
Description:
This modest package contains various common humanization utilities, like turning a number into a fuzzy human readable duration ('3 minutes ago') or into a human readable size or throughput. It works with python 2.7 and 3.3 and is localized to Russian, French, Korean and Slovak.

py-hvac

Homepage:
Spack package:
Versions:
0.9.6, 0.9.5, 0.9.4, 0.9.3, 0.2.17
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-six
Run Dependencies:
python, py-requests, py-six
Description:
HashiCorp Vault API client

py-hypercorn

Homepage:
Spack package:
Versions:
0.13.2
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-h11, py-h2, py-priority, py-toml, py-wsproto, py-typing-extensions
Run Dependencies:
python, py-h11, py-h2, py-priority, py-toml, py-wsproto, py-typing-extensions
Description:
A ASGI Server based on Hyper libraries and inspired by Gunicorn.

py-hyperframe

Homepage:
Spack package:
Versions:
6.0.0, 5.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
HTTP/2 framing layer for Python

py-hyperopt

Homepage:
Spack package:
Versions:
0.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six, py-networkx, py-future, py-tqdm, py-cloudpickle, py-pyspark, py-pymongo, py-scikit-learn, py-lightgbm
Run Dependencies:
python, py-numpy, py-scipy, py-six, py-networkx, py-future, py-tqdm, py-cloudpickle, py-pyspark, py-pymongo, py-scikit-learn, py-lightgbm
Description:
Hyperopt is a Python library for serial and parallel optimization over awkward search spaces, which may include real-valued, discrete, and conditional dimensions.

py-hypothesis

Homepage:
Spack package:
Versions:
6.23.1, 5.3.0, 4.57.1, 4.41.2, 4.24.3, 4.7.2, 3.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-attrs, py-enum34, py-sortedcontainers
Run Dependencies:
python, py-attrs, py-enum34, py-sortedcontainers, py-django, py-pytz, py-numpy, py-pandas
Description:
A library for property based testing.

py-ibm-cloud-sdk-core

Homepage:
Spack package:
Versions:
3.10.0, 3.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-python-dateutil, py-pyjwt
Run Dependencies:
python, py-requests, py-python-dateutil, py-pyjwt
Description:
This project contains core functionality required by Python code generated by the IBM Cloud OpenAPI SDK Generator (openapi-sdkgen).

py-ibm-watson

Homepage:
Spack package:
Versions:
5.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-python-dateutil, py-websocket-client, py-ibm-cloud-sdk-core
Run Dependencies:
python, py-requests, py-python-dateutil, py-websocket-client, py-ibm-cloud-sdk-core
Description:
Python client library to quickly get started with the various Watson APIs services.

py-ics

Homepage:
Spack package:
Versions:
0.7, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-arrow, py-six, py-tatsu
Run Dependencies:
python, py-python-dateutil, py-arrow, py-six, py-tatsu
Description:
Ics.py : iCalendar for Humans Ics.py is a pythonic and easy iCalendar library. Its goals are to read and write ics data in a developer friendly way. iCalendar is a widely-used and useful format but not user friendly. Ics.py is there to give you the ability of creating and reading this format without any knowledge of it. It should be able to parse every calendar that respects the rfc5545 and maybe some more. It also outputs rfc compliant calendars. iCalendar (file extension .ics) is used by Google Calendar, Apple Calendar, Android and many more. Ics.py is available for Python>=3.6 and is Apache2 Licensed.

py-identify

Homepage:
Spack package:
Versions:
1.4.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
File identification library for Python. Given a file (or some information about a file), return a set of standardized tags identifying what the file is.

py-idna

Homepage:
Spack package:
Versions:
3.3, 3.2, 2.9, 2.8, 2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
py-setuptools
Run Dependencies:
python
Description:
Internationalized Domain Names for Python (IDNA 2008 and UTS #46)

py-idna-ssl

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-idna
Run Dependencies:
python, py-idna
Description:
Patch ssl.match_hostname for Unicode(idna) domains support

py-illumina-utils

Homepage:
Spack package:
Versions:
2.3, 2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-numpy, py-python-levenshtein
Run Dependencies:
python, py-matplotlib, py-numpy, py-python-levenshtein
Description:
A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.8+).

py-ilmbase

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
gnuconfig, ilmbase, boost
Link Dependencies:
ilmbase, boost
Description:
The PyIlmBase libraries provides python bindings for the IlmBase libraries.

py-imageio

Homepage:
Spack package:
Versions:
2.16.0, 2.10.3, 2.9.0, 2.5.0, 2.4.1, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, pil
Run Dependencies:
python, py-numpy, pil, ffmpeg
Description:
Python library for reading and writing image data. Imageio is a Python library that provides an easy interface to read and write a wide range of image data, including animated images, video, volumetric data, and scientific formats. It is cross-platform, runs on Python 2.7 and 3.4+, and is easy to install.

py-imageio-ffmpeg

Homepage:
Spack package:
Versions:
0.4.5, 0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, ffmpeg
Description:
The purpose of this project is to provide a simple and reliable ffmpeg wrapper for working with video files. It implements two simple generator functions for reading and writing data from/to ffmpeg, which reliably terminate the ffmpeg process when done. It also takes care of publishing platform-specific wheels that include the binary ffmpeg executables.

py-imagesize

Homepage:
Spack package:
Versions:
1.3.0, 1.1.0, 0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Parses image file headers and returns image size. Supports PNG, JPEG, JPEG2000, and GIF image file formats.

py-imgaug

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-imageio, py-matplotlib, py-numpy, py-scipy, py-shapely, py-six, py-scikit-image, pil, opencv
Run Dependencies:
python, py-imageio, py-matplotlib, py-numpy, py-scipy, py-shapely, py-six, py-scikit-image, pil, opencv
Description:
A library for image augmentation in machine learning experiments, particularly convolutional neural networks. Supports the augmentation of images, keypoints/landmarks, bounding boxes, heatmaps and segmentation maps in a variety of different ways.

py-iminuit

Homepage:
Spack package:
Versions:
2.8.4, 1.5.2, 1.3.7, 1.3.6, 1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-cmake
Run Dependencies:
python, py-numpy
Description:
Interactive IPython-Friendly Minimizer based on SEAL Minuit2.

py-immutables

Homepage:
Spack package:
Versions:
0.16, 0.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing-extensions
Run Dependencies:
python, py-typing-extensions
Description:
An immutable mapping type for Python.

py-importlib

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Packaging for importlib from Python 2.7

py-importlib-metadata

Homepage:
Spack package:
Versions:
4.11.1, 4.8.2, 4.8.1, 4.6.1, 3.10.1, 3.10.0, 2.0.0, 1.7.0, 1.2.0, 0.23, 0.19, 0.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-zipp, py-typing-extensions, py-pathlib2, py-contextlib2, py-configparser
Run Dependencies:
python, py-zipp, py-typing-extensions, py-pathlib2, py-contextlib2, py-configparser
Description:
Read metadata from Python packages.

py-importlib-resources

Homepage:
Spack package:
Versions:
5.3.0, 5.2.3, 5.2.2, 5.1.0, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-zipp, py-pathlib2, py-typing
Run Dependencies:
python, py-zipp, py-pathlib2, py-typing
Description:
Read resources from Python packages

py-incremental

Homepage:
Spack package:
Versions:
21.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A small library that versions your Python projects.

py-inference-schema

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-python-dateutil, py-pytz, py-wrapt, py-numpy, py-pandas, py-pyspark
Run Dependencies:
python, py-python-dateutil, py-pytz, py-wrapt, py-numpy, py-pandas, py-pyspark
Description:
This package is intended to provide a uniform schema for common machine learning applications, as well as a set of decorators that can be used to aid in web based ML prediction applications.

py-inheritance

Homepage:
Spack package:
Versions:
0.1.5, 0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This module is a general-purpose framework for evaluating if a family exihibits, for example, and autosomal dominant pattern.

py-iniconfig

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
iniconfig: brain-dead simple parsing of ini files

py-iniparse

Homepage:
Spack package:
Versions:
master, 0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Accessing and Modifying INI files

py-installer

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-configparser, py-importlib-resources
Run Dependencies:
python, py-configparser, py-importlib-resources
Description:
A library for installing Python wheels.

py-intel-openmp

Homepage:
Spack package:
Versions:
2021.1.2
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Intel OpenMP* Runtime Library x86_64 dynamic libraries for macOS*. Intel OpenMP* Runtime Library provides OpenMP API specification support in Intel C Compiler, Intel C++ Compiler and Intel Fortran Compiler. It helps to improve performance by creating multithreaded software using shared memory and running on multi-core processor systems.

py-interface-meta

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setupmeta
Run Dependencies:
python
Description:
A convenient way to expose an extensible API with enforced method signatures and consistent documentation.

py-intervaltree

Homepage:
Spack package:
Versions:
3.0.2, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-sortedcontainers, py-setuptools
Run Dependencies:
python, py-sortedcontainers
Description:
Editable interval tree data structure for Python 2 and 3.

py-invoke

Homepage:
Spack package:
Versions:
1.4.1, 1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pythonic task execution

py-iocapture

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Capture stdout, stderr easily.

py-ipaddress

Homepage:
Spack package:
Versions:
1.0.23, 1.0.22, 1.0.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python 3.3's ipaddress for older Python versions

py-ipdb

Homepage:
Spack package:
Versions:
0.10.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ipython, py-traitlets, py-six, py-pexpect, py-prompt-toolkit
Link Dependencies:
python, py-ipython, py-traitlets, py-six, py-pexpect, py-prompt-toolkit
Run Dependencies:
python
Description:
ipdb is the iPython debugger and has many additional features, including a better interactive debugging experience via colorized output.

py-ipycanvas

Homepage:
Spack package:
Versions:
0.10.2, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging7, py-jupyterlab, py-ipywidgets, pil, py-numpy
Run Dependencies:
python, py-ipywidgets, pil, py-numpy
Description:
Interactive Canvas in Jupyter.

py-ipyevents

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging7, py-jupyterlab, py-ipywidgets
Run Dependencies:
python, py-ipywidgets
Description:
A custom widget for returning mouse and keyboard events to Python.

py-ipykernel

Homepage:
Spack package:
Versions:
6.9.1, 6.4.1, 6.2.0, 6.0.2, 5.5.6, 5.5.5, 5.3.4, 5.1.1, 5.1.0, 4.10.0, 4.5.0, 4.4.1, 4.4.0, 4.3.1, 4.3.0, 4.2.2, 4.2.1, 4.2.0, 4.1.1, 4.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-core, py-ipython-genutils, py-importlib-metadata, py-argcomplete, py-debugpy, py-ipython, py-traitlets, py-jupyter-client, py-tornado, py-matplotlib-inline, py-appnope, py-nest-asyncio
Run Dependencies:
python, py-ipython-genutils, py-importlib-metadata, py-argcomplete, py-debugpy, py-ipython, py-traitlets, py-jupyter-client, py-tornado, py-matplotlib-inline, py-appnope, py-nest-asyncio
Description:
IPython Kernel for Jupyter

py-ipython-cluster-helper

Homepage:
Spack package:
Versions:
0.6.4, 0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyzmq, py-ipython, py-ipyparallel, py-netifaces, py-six
Run Dependencies:
python, py-setuptools, py-pyzmq, py-ipython, py-ipyparallel, py-netifaces, py-six
Description:
Quickly and easily parallelize Python functions using IPython on a cluster, supporting multiple schedulers. Optimizes IPython defaults to handle larger clusters and simultaneous processes.

py-ipython-genutils

Homepage:
Spack package:
Versions:
0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Vestigial utilities from IPython

py-ipyvtk-simple

Homepage:
Spack package:
Versions:
0.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ipycanvas, py-ipyevents, py-ipywidgets
Run Dependencies:
python, py-ipycanvas, py-ipyevents, py-ipywidgets
Description:
ipywidget for vtkRenderWindow.

py-ipywidgets

Homepage:
Spack package:
Versions:
7.7.0, 7.6.5, 7.6.3, 7.5.1, 7.4.2, 5.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ipython, py-jupyterlab-widgets, py-ipykernel, py-ipython-genutils, py-traitlets, py-nbformat, py-widgetsnbextension
Run Dependencies:
python, py-ipython, py-jupyterlab-widgets, py-ipykernel, py-ipython-genutils, py-traitlets, py-nbformat, py-widgetsnbextension
Description:
IPython widgets for the Jupyter Notebook

py-irpf90

Homepage:
Spack package:
Versions:
1.7.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
IRPF90 is a Fortran90 preprocessor written in Python for programming using the Implicit Reference to Parameters (IRP) method. It simplifies the development of large fortran codes in the field of scientific high performance computing.

py-iso8601

Homepage:
Spack package:
Versions:
1.0.2, 0.1.14
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-setuptools
Run Dependencies:
python
Description:
Simple module to parse ISO 8601 dates

py-isodate

Homepage:
Spack package:
Versions:
0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
This module implements ISO 8601 date, time and duration parsing. The implementation follows ISO8601:2004 standard, and implements only date/time representations mentioned in the standard. If something is not mentioned there, then it is treated as non existent, and not as an allowed option.

py-isort

Homepage:
Spack package:
Versions:
5.9.3, 5.9.1, 4.3.20, 4.2.15
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-futures, py-backports-functools-lru-cache, py-colorama
Run Dependencies:
python, py-futures, py-backports-functools-lru-cache, py-colorama
Description:
A Python utility / library to sort Python imports.

py-itk

Homepage:
Spack package:
Versions:
5.1.2-cp39, 5.1.2-cp38, 5.1.2-cp37, 5.1.2-cp36, 5.1.1-cp38, 5.1.1-cp37, 5.1.1-cp36, 5.1.1-cp35
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python, py-setuptools
Description:
ITK is an open-source toolkit for multidimensional image analysis

py-itsdangerous

Homepage:
Spack package:
Versions:
2.0.1, 1.1.0, 0.24
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Various helpers to pass trusted data to untrusted environments.

py-jaconv

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
jaconv (Japanese Converter) is interconverter for Hiragana, Katakana, Hankaku (half-width character) and Zenkaku (full-width character)

py-jamo

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python-jamo is a Python Hangul syllable decomposition and synthesis library for working with Hangul characters and jamo.

py-jaraco-functools

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-backports-functools-lru-cache, py-more-itertools
Run Dependencies:
python, py-backports-functools-lru-cache, py-more-itertools
Description:
Functools like those found in stdlib

py-javaproperties

Homepage:
Spack package:
Versions:
0.7.0, 0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Read & write Java .properties files.

py-jdatetime

Homepage:
Spack package:
Versions:
3.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
jdatetime is Jalali implementation of Python's datetime module

py-jdcal

Homepage:
Spack package:
Versions:
1.3, 1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Julian dates from proleptic Gregorian and Julian calendars

py-jedi

Homepage:
Spack package:
Versions:
0.18.1, 0.18.0, 0.17.2, 0.17.1, 0.15.1, 0.15.0, 0.14.1, 0.14.0, 0.13.3, 0.13.2, 0.13.1, 0.13.0, 0.12.1, 0.12.0, 0.10.2, 0.10.1, 0.10.0, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-parso
Run Dependencies:
python, py-setuptools, py-parso
Description:
An autocompletion tool for Python that can be used for text editors.

py-jeepney

Homepage:
Spack package:
Versions:
0.7.1, 0.6.0, 0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-flit-core
Run Dependencies:
python
Description:
Low-level, pure Python DBus protocol wrapper.

py-jellyfish

Homepage:
Spack package:
Versions:
0.6.1, 0.5.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
a library for doing approximate and phonetic matching of strings.

py-jinja2

Homepage:
Spack package:
Versions:
3.0.3, 3.0.1, 2.11.3, 2.10.3, 2.10.1, 2.10, 2.9.6, 2.8, 2.7.3, 2.7.2, 2.7.1, 2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-markupsafe, py-babel
Run Dependencies:
python, py-markupsafe, py-babel
Description:
Jinja2 is a template engine written in pure Python. It provides a Django inspired non-XML syntax but supports inline expressions and an optional sandboxed environment.

py-jinja2-time

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-arrow, py-jinja2
Link Dependencies:
py-arrow, py-jinja2
Run Dependencies:
python
Description:
Jinja2 Extension for Dates and Times

py-jmespath

Homepage:
Spack package:
Versions:
0.10.0, 0.9.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
JSON Matching Expressions.

py-joblib

Homepage:
Spack package:
Versions:
1.1.0, 1.0.1, 1.0.0, 0.17.0, 0.16.0, 0.15.1, 0.15.0, 0.14.1, 0.14.0, 0.13.2, 0.11, 0.10.3, 0.10.2, 0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Lightweight pipelining with Python functions.

py-jplephem

Homepage:
Spack package:
Versions:
2.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
This package can load and use a Jet Propulsion Laboratory (JPL) ephemeris for predicting the position and velocity of a planet or other Solar System body.

py-jprops

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Java properties file parser for Python

py-jpype1

Homepage:
Spack package:
Versions:
0.6.3, 0.6.2, 0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, java, py-numpy
Link Dependencies:
python
Run Dependencies:
python, java, py-numpy
Description:
JPype is an effort to allow python programs full access to java class libraries.

py-jsmin

Homepage:
Spack package:
Versions:
2.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
JavaScript minifier.

py-json-get

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Get values from JSON objects usings a path expression.

py-json5

Homepage:
Spack package:
Versions:
0.9.6, 0.9.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
The JSON5 Data Interchange Format (JSON5) is a superset of JSON that aims to alleviate some of the limitations of JSON by expanding its syntax to include some productions from ECMAScript 5.1.

py-jsondiff

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Diff JSON and JSON-like structures in Python.

py-jsonpatch

Homepage:
Spack package:
Versions:
1.23
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jsonpointer
Run Dependencies:
python, py-jsonpointer
Description:
Library to apply JSON Patches according to RFC 6902

py-jsonpath-ng

Homepage:
Spack package:
Versions:
1.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ply, py-decorator, py-six
Run Dependencies:
python, py-ply, py-decorator, py-six
Description:
A final implementation of JSONPath for Python that aims to be standard compliant, including arithmetic and binary comparison operators.

py-jsonpickle

Homepage:
Spack package:
Versions:
2.0.0, 1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
Python library for serializing any arbitrary object graph into JSON.

py-jsonpointer

Homepage:
Spack package:
Versions:
2.0, 1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library to resolve JSON Pointers according to RFC 6901

py-jsonref

Homepage:
Spack package:
Versions:
0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
An implementation of JSON Reference for Python

py-jsonschema

Homepage:
Spack package:
Versions:
4.4.0, 3.2.0, 3.1.1, 3.0.2, 3.0.1, 2.6.0, 2.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-vcversioner, py-setuptools-scm, py-attrs, py-importlib-metadata, py-importlib-resources, py-pyrsistent, py-typing-extensions, py-six, py-functools32
Run Dependencies:
python, py-setuptools, py-attrs, py-importlib-metadata, py-importlib-resources, py-pyrsistent, py-typing-extensions, py-six, py-functools32
Description:
Jsonschema: An(other) implementation of JSON Schema for Python.

py-junit-xml

Homepage:
Spack package:
Versions:
1.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Creates JUnit XML test result documents that can be read by tools such as Jenkins

py-jupyter

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-notebook, py-qtconsole, py-jupyter-console, py-nbconvert, py-ipykernel, py-ipywidgets
Run Dependencies:
python, py-notebook, py-qtconsole, py-jupyter-console, py-nbconvert, py-ipykernel, py-ipywidgets
Description:
Jupyter metapackage. Install all the Jupyter components in one go.

py-jupyter-client

Homepage:
Spack package:
Versions:
7.1.2, 7.0.6, 6.1.12, 6.1.7, 5.3.4, 5.2.4, 4.4.0, 4.3.0, 4.2.2, 4.2.1, 4.2.0, 4.1.1, 4.1.0, 4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-entrypoints, py-jupyter-core, py-nest-asyncio, py-python-dateutil, py-pyzmq, py-tornado, py-traitlets
Run Dependencies:
python, py-setuptools, py-entrypoints, py-jupyter-core, py-nest-asyncio, py-python-dateutil, py-pyzmq, py-tornado, py-traitlets
Description:
Jupyter protocol client APIs

py-jupyter-console

Homepage:
Spack package:
Versions:
6.4.3, 6.4.0, 6.1.0, 5.2.0, 5.0.0, 4.1.1, 4.1.0, 4.0.3, 4.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-client, py-ipython, py-ipykernel, py-pygments, py-prompt-toolkit
Run Dependencies:
python, py-jupyter-client, py-ipython, py-ipykernel, py-pygments, py-prompt-toolkit
Description:
Jupyter Terminal Console

py-jupyter-core

Homepage:
Spack package:
Versions:
4.9.2, 4.7.1, 4.6.3, 4.6.1, 4.6.0, 4.4.0, 4.2.0, 4.1.1, 4.1.0, 4.0.6, 4.0.5, 4.0.4, 4.0.3, 4.0.2, 4.0.1, 4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-traitlets
Run Dependencies:
python, py-setuptools, py-traitlets
Description:
Core Jupyter functionality

py-jupyter-packaging

Homepage:
Spack package:
Versions:
0.11.1, 0.10.6, 0.10.4, 0.7.12
Build Dependencies:
python, py-pip, py-wheel, py-packaging, py-tomlkit, py-setuptools, py-deprecation
Run Dependencies:
python, py-wheel, py-packaging, py-tomlkit, py-setuptools, py-deprecation
Description:
Jupyter Packaging Utilities.

py-jupyter-packaging11

Homepage:
Spack package:
Versions:
0.11.1
Build Dependencies:
python, py-pip, py-wheel, py-packaging, py-tomlkit, py-setuptools, py-deprecation
Run Dependencies:
python, py-wheel, py-packaging, py-tomlkit, py-setuptools, py-deprecation
Description:
Jupyter Packaging Utilities, version 11.

py-jupyter-packaging7

Homepage:
Spack package:
Versions:
0.7.12
Build Dependencies:
python, py-pip, py-wheel, py-packaging, py-setuptools
Run Dependencies:
python, py-packaging, py-setuptools
Description:
Jupyter Packaging Utilities, version 7.

py-jupyter-server

Homepage:
Spack package:
Versions:
1.13.5, 1.11.2, 1.11.1, 1.11.0, 1.10.2, 1.9.0, 1.6.1
Build Dependencies:
python, py-pip, py-wheel, py-jupyter-packaging11, py-setuptools, py-jinja2, py-tornado, py-pyzmq, py-argon2-cffi, py-ipython-genutils, py-traitlets, py-jupyter-core, py-jupyter-client, py-nbformat, py-nbconvert, py-send2trash, py-terminado, py-prometheus-client, py-anyio, py-websocket-client, py-packaging, py-requests-unixsocket
Run Dependencies:
python, py-jinja2, py-tornado, py-pyzmq, py-argon2-cffi, py-ipython-genutils, py-traitlets, py-jupyter-core, py-jupyter-client, py-nbformat, py-nbconvert, py-send2trash, py-terminado, py-prometheus-client, py-anyio, py-websocket-client, py-packaging, py-requests-unixsocket
Description:
The Jupyter Server provides the backend (i.e. the core services, APIs, and REST endpoints) for Jupyter web applications like Jupyter notebook, JupyterLab, and Voila.

py-jupyter-server-mathjax

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging, py-jupyter-server
Run Dependencies:
python, py-jupyter-server
Description:
MathJax resources as a Jupyter Server Extension.

py-jupyter-telemetry

Homepage:
Spack package:
Versions:
0.1.0, 0.0.5
Build Dependencies:
python, py-pip, py-wheel, py-python-json-logger, py-jsonschema, py-ruamel-yaml, py-setuptools, py-traitlets
Run Dependencies:
python, py-python-json-logger, py-jsonschema, py-ruamel-yaml, py-traitlets
Description:
Jupyter Telemetry enables Jupyter Applications to record events and transmit

py-jupyterlab

Homepage:
Spack package:
Versions:
3.2.9, 3.2.1, 3.1.19, 3.1.18, 3.1.14, 3.0.18, 3.0.16, 3.0.14, 2.2.7, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging11, py-jupyter-packaging7, py-jinja2, py-ipython, py-packaging, py-tornado, py-jupyter-core, py-jupyterlab-server, py-jupyter-server, py-nbclassic, py-notebook
Run Dependencies:
python, py-setuptools, py-jinja2, py-ipython, py-packaging, py-tornado, py-jupyter-core, py-jupyterlab-server, py-jupyter-server, py-nbclassic, py-notebook
Description:
JupyterLab is the next-generation web-based user interface for Project Jupyter.

py-jupyterlab-pygments

Homepage:
Spack package:
Versions:
0.1.2, 0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pygments
Run Dependencies:
python, py-pygments
Description:
Pygments theme using JupyterLab CSS variables.

py-jupyterlab-server

Homepage:
Spack package:
Versions:
2.10.3, 2.6.0, 1.2.0, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging11, py-babel, py-entrypoints, py-jinja2, py-json5, py-jsonschema, py-packaging, py-requests, py-jupyter-server, py-notebook
Run Dependencies:
python, py-babel, py-entrypoints, py-jinja2, py-json5, py-jsonschema, py-packaging, py-requests, py-jupyter-server, py-notebook
Description:
A set of server components for JupyterLab and JupyterLab like applications

py-jupyterlab-widgets

Homepage:
Spack package:
Versions:
1.1.0, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging7, py-jupyterlab
Run Dependencies:
python
Description:
A JupyterLab extension.

py-jupytext

Homepage:
Spack package:
Versions:
1.13.6, 1.13.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nbformat, py-pyyaml, py-toml, py-mdit-py-plugins, py-markdown-it-py, py-jupyterlab, py-jupyter-packaging7
Run Dependencies:
python, py-nbformat, py-pyyaml, py-toml, py-mdit-py-plugins, py-markdown-it-py, py-jupyterlab
Description:
Jupyter Notebooks as Markdown Documents, Julia, Python or R scripts

py-kaggle

Homepage:
Spack package:
Versions:
1.5.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-certifi, py-python-dateutil, py-requests, py-tqdm, py-python-slugify, py-urllib3
Run Dependencies:
python, py-six, py-certifi, py-python-dateutil, py-requests, py-tqdm, py-python-slugify, py-urllib3
Description:
Official API for https://www.kaggle.com, accessible using a command line tool implemented in Python. Beta release - Kaggle reserves the right to modify the API functionality currently offered.

py-kaldiio

Homepage:
Spack package:
Versions:
2.17.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pytest-runner
Run Dependencies:
python, py-numpy
Description:
A pure python module for reading and writing kaldi ark files

py-keras

Homepage:
Spack package:
Versions:
2.7.0, 2.6.0, 2.5.0, 2.4.3, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.6, 2.1.5, 2.1.4, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.9, 2.0.8, 2.0.7, 2.0.6, 2.0.5, 2.0.4, 2.0.3, 1.2.2, 1.2.1, 1.2.0, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-h5py, py-setuptools, py-theano, py-pyyaml, py-six, py-tensorflow, bazel, protobuf
Run Dependencies:
python, py-numpy, py-scipy, py-h5py, py-keras-applications, py-keras-preprocessing, py-theano, py-pyyaml, py-six, py-tensorflow
Description:
Deep Learning library for Python. Convnets, recurrent neural networks, and more. Runs on Theano or TensorFlow.

py-keras-applications

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6, 1.0.4, 1.0.3, 1.0.2, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Sample Deep Learning application in Keras. Keras depends on this package to run properly.

py-keras-preprocessing

Homepage:
Spack package:
Versions:
1.1.2, 1.1.0, 1.0.9, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-numpy
Run Dependencies:
python, py-six, py-numpy
Description:
Utilities for working with image data, text data, and sequence data.

py-keras2onnx

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-protobuf, py-requests, py-onnx, py-onnxconverter-common, py-fire
Run Dependencies:
python, py-numpy, py-protobuf, py-requests, py-onnx, py-onnxconverter-common, py-fire
Description:
Converts Machine Learning models to ONNX for use in Windows ML

py-kerberos

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, keyutils, krb5
Link Dependencies:
keyutils, krb5
Run Dependencies:
python
Description:
This Python package is a high-level wrapper for Kerberos (GSSAPI) operations. The goal is to avoid having to build a module that wraps the entire Kerberos.framework, and instead offer a limited set of functions that do what is needed for client/server Kerberos authentication based on <https://www.ietf.org/rfc/rfc4559.txt>.

py-keyboard

Homepage:
Spack package:
Versions:
0.13.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Take full control of your keyboard with this small Python library. Hook global events, register hotkeys, simulate key presses and much more.

py-keyring

Homepage:
Spack package:
Versions:
23.5.0, 23.2.1, 23.2.0, 23.1.0, 23.0.1, 21.7.0, 20.0.1, 18.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-entrypoints, py-secretstorage, py-jeepney, py-importlib-metadata
Run Dependencies:
python, py-entrypoints, py-secretstorage, py-jeepney, py-importlib-metadata
Description:
The Python keyring library provides an easy way to access the system keyring service from python. It can be used in any application that needs safe password storage.

py-keyrings-alt

Homepage:
Spack package:
Versions:
4.1.0, 4.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Alternate keyring implementations

py-keystoneauth1

Homepage:
Spack package:
Versions:
4.3.1
Build Dependencies:
python, py-pip, py-wheel, py-pbr, py-setuptools, py-iso8601, py-requests, py-six, py-stevedore, py-os-service-types
Run Dependencies:
python, py-iso8601, py-requests, py-six, py-stevedore, py-os-service-types
Description:
This package contains tools for authenticating to an OpenStack-based cloud

py-kitchen

Homepage:
Spack package:
Versions:
1.2.6, 1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Kitchen contains a cornucopia of useful code

py-kiwisolver

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3.0, 1.2.0, 1.1.0, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cppy
Run Dependencies:
python
Description:
A fast implementation of the Cassowary constraint solver

py-kmodes

Homepage:
Spack package:
Versions:
0.10.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scikit-learn, py-scipy, py-joblib
Run Dependencies:
python, py-numpy, py-scikit-learn, py-scipy, py-joblib
Description:
Python implementations of the k-modes and k-prototypes clustering algorithms for clustering categorical data.

py-knack

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-argcomplete, py-colorama, py-jmespath, py-pygments, py-pyyaml, py-six, py-tabulate
Run Dependencies:
python, py-argcomplete, py-colorama, py-jmespath, py-pygments, py-pyyaml, py-six, py-tabulate
Description:
A Command-Line Interface framework.

py-kombu

Homepage:
Spack package:
Versions:
5.2.3, 5.0.2, 4.6.11, 4.6.6, 4.5.0, 4.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-amqp, py-vine, py-importlib-metadata, py-cached-property, py-redis
Run Dependencies:
python, py-amqp, py-vine, py-importlib-metadata, py-cached-property, py-redis
Description:
Messaging library for Python.

py-kornia

Homepage:
Spack package:
Versions:
0.6.2, 0.6.1, 0.5.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-torch, py-packaging
Run Dependencies:
python, py-torch, py-packaging
Description:
Open Source Differentiable Computer Vision Library for PyTorch.

py-kosh

Homepage:
Spack package:
Versions:
2.1, 2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-llnl-sina, py-networkx, py-numpy
Run Dependencies:
python, py-llnl-sina, py-networkx, py-numpy
Description:
Kosh allows codes to store, query, share data via an easy-to-use Python API. Kosh lies on top of Sina and can use any database backend supported by Sina. In adition Kosh aims to make data access and sharing as simple as possible.

py-kubernetes

Homepage:
Spack package:
Versions:
21.7.0, 20.13.0, 19.15.0, 18.20.0, 17.17.0, 12.0.1, 12.0.0, 11.0.0, 10.1.0, 10.0.1, 9.0.0
Build Dependencies:
python, py-pip, py-wheel, py-certifi, py-six, py-python-dateutil, py-setuptools, py-pyyaml, py-google-auth, py-ipaddress, py-websocket-client, py-requests, py-requests-oauthlib, py-urllib3
Run Dependencies:
python, py-certifi, py-six, py-python-dateutil, py-pyyaml, py-google-auth, py-ipaddress, py-websocket-client, py-requests, py-requests-oauthlib, py-urllib3
Description:
Official Python client library for kubernetes.

py-lap

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy
Run Dependencies:
python, py-numpy
Description:
lap is a linear assignment problem solver using Jonker-Volgenant algorithm for dense (LAPJV) or sparse (LAPMOD) matrices.

py-lark-parser

Homepage:
Spack package:
Versions:
0.11.3, 0.7.1, 0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Lark is a modern general-purpose parsing library for Python.

py-laspy

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Native Python ASPRS LAS read/write library.

py-latexcodec

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
A lexer and codec to work with LaTeX code in Python.

py-law

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-luigi
Run Dependencies:
python, py-six, py-luigi
Description:
Build large-scale task workflows using luigi, remote job submission, remote targets, and environment

py-lazy

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Lazy attributes for Python objects

py-lazy-object-proxy

Homepage:
Spack package:
Versions:
1.6.0, 1.4.3, 1.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools-scm, py-setuptools
Run Dependencies:
python
Description:
A fast and thorough lazy object proxy.

py-lazy-property

Homepage:
Spack package:
Versions:
0.0.1, 0.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A package for making properties lazy

py-lazyarray

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1, 0.5.0, 0.4.0, 0.3.4, 0.3.3, 0.3.2, 0.2.10, 0.2.8
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
a Python package that provides a lazily-evaluated numerical array class, larray, based on and compatible with NumPy arrays.

py-leather

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Leather is the Python charting library for those who need charts now and don't care if they're perfect.

py-lerc

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Limited Error Raster Compression.

py-lhsmdu

Homepage:
Spack package:
Versions:
1.1, 0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python
Description:
Latin Hypercube Sampling with Multi-Dimensional Uniformity (LHS-MDU) from Deutsch and Deutsch, Latin hypercube sampling with multidimensional uniformity.

py-liac-arff

Homepage:
Spack package:
Versions:
2.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Run Dependencies:
python
Description:
The liac-arff module implements functions to read and write ARFF files in Python.

py-libclang

Homepage:
Spack package:
Versions:
11.1.0, 11.0.1, 11.0.0, 10.0.1, 9.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, llvm
Run Dependencies:
python
Description:
The repository contains code that taken from the LLVM project, to make it easier to install clang's python bindings.

py-libconf

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure-Python libconfig reader/writer with permissive license

py-libensemble

Homepage:
Spack package:
Versions:
develop, 0.9.1, 0.9.0, 0.8.0, 0.7.2, 0.7.1, 0.7.0, 0.6.0, 0.5.2, 0.5.1, 0.5.0, 0.4.1, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-psutil, mpi, py-mpi4py, py-scipy, py-petsc4py, nlopt, py-mpmath, py-deap, tasmanian, py-pyyaml
Link Dependencies:
mpi
Run Dependencies:
python, py-numpy, py-psutil, py-mpi4py, py-scipy, py-petsc4py, nlopt, py-mpmath, py-deap, tasmanian, py-pyyaml
Description:
Library for managing ensemble-like collections of computations.

py-liblas

Homepage:
Spack package:
Versions:
1.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, liblas
Link Dependencies:
liblas
Run Dependencies:
python
Description:
libLAS is a C/C++ library for reading and writing the very common LAS LiDAR format.

py-lifelines

Homepage:
Spack package:
Versions:
0.25.5, 0.9.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pandas, py-matplotlib, py-autograd, py-autograd-gamma, py-patsy
Run Dependencies:
python, py-numpy, py-scipy, py-pandas, py-matplotlib, py-autograd, py-autograd-gamma, py-patsy
Description:
Survival analysis was originally developed and applied heavily by the actuarial and medical community. Its purpose was to answer *why do events occur now versus later* under uncertainty (where *events* might refer to deaths, disease remission, etc.). *lifelines* is a pure Python implementation of the best parts of survival analysis.

py-lightgbm

Homepage:
Spack package:
Versions:
3.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, cmake, mpi
Link Dependencies:
mpi
Run Dependencies:
python, py-wheel, py-numpy, py-scipy, py-scikit-learn
Description:
LightGBM is a gradient boosting framework that uses tree based learning algorithms.

py-ligo-segments

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Representations of semi-open intervals.

py-line-profiler

Homepage:
Spack package:
Versions:
2.1.2, 2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-ipython
Run Dependencies:
python, py-ipython
Description:
Line-by-line profiler.

py-linecache2

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr
Run Dependencies:
python
Description:
Backports of the linecache module

py-lineenhancer

Homepage:
Spack package:
Versions:
1.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-mrcfile
Run Dependencies:
python, py-numpy, py-scipy, py-mrcfile
Description:
The line enhancer is only used by crYOLO internally

py-lit

Homepage:
Spack package:
Versions:
0.7.1, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
lit is a portable tool for executing LLVM and Clang style test suites, summarizing their results, and providing indication of failures. lit is designed to be a lightweight testing tool with as simple a user interface as possible.

py-lizard

Homepage:
Spack package:
Versions:
1.17.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A code analyzer without caring the C/C++ header files. It works with Java, C/C++, JavaScript, Python, Ruby, Swift, Objective C. Metrics includes cyclomatic complexity number etc.

py-llnl-sina

Homepage:
Spack package:
Versions:
1.11.0, 1.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, py-ujson, py-sqlalchemy, py-six
Run Dependencies:
python, py-enum34, py-ujson, py-sqlalchemy, py-six
Description:
Sina allows codes to store, query, and visualize their data through an easy-to-use Python API. Data that fits its recognized schema can be ingested into one or more supported backends. Sina's API is independent of backend and gives users the benefits of a database without requiring knowledge of one, allowing queries to be expressed in pure Python. Visualizations are also provided through Python. Sina is intended especially for use with run metadata, allowing users to easily and efficiently find simulation runs that match some criteria.

py-llvmlite

Homepage:
Spack package:
Versions:
0.38.0, 0.37.0, 0.34.0, 0.33.0, 0.31.0, 0.29.0, 0.27.1, 0.26.0, 0.25.0, 0.23.0, 0.20.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, llvm, binutils
Link Dependencies:
llvm
Run Dependencies:
python, py-enum34
Description:
A lightweight LLVM python binding for writing JIT compilers

py-lmdb

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, lmdb
Link Dependencies:
lmdb
Run Dependencies:
python
Description:
Universal Python binding for the LMDB 'Lightning' Database

py-lmfit

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1, 0.9.15, 0.9.5
Build Dependencies:
python, py-pip, py-wheel, py-asteval, py-numpy, py-scipy, py-setuptools, py-six, py-uncertainties
Run Dependencies:
python, py-asteval, py-numpy, py-scipy, py-six, py-uncertainties
Description:
Least-Squares Minimization with Bounds and Constraints

py-lmodule

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, lmod
Description:
Lmodule is a Python API for Lmod module system. It's primary purpose is to help automate module testing. Lmodule uses Lmod spider tool to query all modules in-order to automate module testing. Lmodule can be used with environment-modules to interact with module using the Module class.

py-localcider

Homepage:
Spack package:
Versions:
0.1.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-matplotlib, py-scipy
Run Dependencies:
python, py-numpy, py-matplotlib, py-scipy
Description:
Tools for calculating sequence properties of disordered proteins

py-locket

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
File-based locks for Python for Linux and Windows.

py-lockfile

Homepage:
Spack package:
Versions:
0.12.2, 0.10.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr
Run Dependencies:
python
Description:
The lockfile package exports a LockFile class which provides a simple API for locking files. Unlike the Windows msvcrt.locking function, the fcntl.lockf and flock functions, and the deprecated posixfile module, the API is identical across both Unix (including Linux and Mac) and Windows platforms. The lock mechanism relies on the atomic nature of the link (on Unix) and mkdir (on Windows) system calls. An implementation based on SQLite is also provided, more as a demonstration of the possibilities it provides than as production-quality code.

py-logilab-common

Homepage:
Spack package:
Versions:
1.4.2, 1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-unittest2
Run Dependencies:
python, py-setuptools, py-six, py-unittest2
Description:
Common modules used by Logilab projects

py-louie

Homepage:
Spack package:
Versions:
2.0, 1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Louie provides Python programmers with a straightforward way to dispatch signals between objects in a wide variety of contexts. It is based on PyDispatcher, which in turn was based on a highly-rated recipe in the Python Cookbook.

py-lru-dict

Homepage:
Spack package:
Versions:
1.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A fast LRU cache

py-lscsoft-glue

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pyopenssl, py-numpy, py-ligo-segments
Run Dependencies:
python, py-six, py-pyopenssl, py-numpy, py-ligo-segments
Description:
Glue (Grid LSC User Environment) is a suite of python modules and programs to allow users to run LSC codes on the grid. It also provides certain metadata services, such as the LSC segment database.

py-luigi

Homepage:
Spack package:
Versions:
3.0.3, 3.0.2, 3.0.1, 2.8.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, py-tornado, py-tenacity, py-python-daemon, py-python-dateutil
Run Dependencies:
python, py-enum34, py-tornado, py-tenacity, py-python-daemon, py-python-dateutil
Description:
Workflow mgmgt + task scheduling + dependency resolution

py-lws

Homepage:
Spack package:
Versions:
1.2.6
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
Fast spectrogram phase recovery using Local Weighted Sums

py-lxml

Homepage:
Spack package:
Versions:
4.8.0, 4.6.4, 4.6.3, 4.6.1, 4.5.2, 4.4.1, 4.3.3, 4.2.5, 3.7.3, 2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, libxml2, libxslt, py-html5lib, py-beautifulsoup4, py-cssselect
Link Dependencies:
libxml2, libxslt
Run Dependencies:
python, libxml2, libxslt, py-html5lib, py-beautifulsoup4, py-cssselect
Description:
lxml is the most feature-rich and easy-to-use library for processing XML and HTML in the Python language.

py-lz4

Homepage:
Spack package:
Versions:
3.1.3, 3.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pkgconfig, lz4, py-future
Link Dependencies:
lz4
Run Dependencies:
python, py-future
Description:
lz4 (compression library) bindings for Python

py-lzstring

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future
Run Dependencies:
python, py-future
Description:
lz-string for python.

py-m2r

Homepage:
Spack package:
Versions:
0.2.1, 0.2.0, 0.1.15, 0.1.14, 0.1.13, 0.1.12, 0.1.11, 0.1.10, 0.1.9, 0.1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-mistune, py-docutils
Run Dependencies:
python, py-mistune, py-docutils
Description:
M2R converts a markdown file including reStructuredText (rst) markups to a valid rst format.

py-macholib

Homepage:
Spack package:
Versions:
1.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-altgraph
Run Dependencies:
python, py-setuptools, py-altgraph
Description:
Python package for Mach-O header analysis and editing

py-machotools

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-macholib
Run Dependencies:
python, py-macholib
Description:
Python package for editing Mach-O headers using macholib

py-macs2

Homepage:
Spack package:
Versions:
2.2.4, 2.1.4, 2.1.3.3, 2.1.1.20160309
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-numpy
Run Dependencies:
python, py-setuptools, py-numpy
Description:
MACS2 Model-based Analysis of ChIP-Seq

py-maestrowf

Homepage:
Spack package:
Versions:
develop, master, 1.1.9dev1, 1.1.8, 1.1.7dev0, 1.1.7, 1.1.6, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-poetry, py-cryptography, py-pyyaml, py-six, py-enum34, py-tabulate, py-filelock, py-coloredlogs, py-chainmap, py-dill, py-jsonschema
Run Dependencies:
python, py-pyyaml, py-six, py-enum34, py-tabulate, py-filelock, py-coloredlogs, py-chainmap, py-dill, py-jsonschema
Description:
A general purpose workflow conductor for running multi-step simulation studies.

py-magic

Homepage:
Spack package:
Versions:
0.4.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, file
Description:
A python wrapper for libmagic. .. warning:: DO NOT USE: this is a duplicate of py-python-magic and will be deleted.

py-mailchecker

Homepage:
Spack package:
Versions:
4.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Cross-language email validation. Backed by a database of thousands throwable email providers

py-make

Homepage:
Spack package:
Versions:
0.1.6.post2, 0.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jinja2, py-jinja2-time
Run Dependencies:
python, py-jinja2, py-jinja2-time
Description:
Create project layout from jinja2 templates

py-mako

Homepage:
Spack package:
Versions:
1.1.6, 1.1.5, 1.1.4, 1.0.4, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-markupsafe
Run Dependencies:
python, py-markupsafe
Description:
A super-fast templating language that borrows the best ideas from the existing templating languages.

py-mapclassify

Homepage:
Spack package:
Versions:
2.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-numpy, py-scikit-learn, py-pandas, py-networkx
Run Dependencies:
python, py-scipy, py-numpy, py-scikit-learn, py-pandas, py-networkx
Description:
Classification Schemes for Choropleth Maps.

py-markdown

Homepage:
Spack package:
Versions:
3.3.4, 3.1.1, 2.6.11, 2.6.7, 2.6.6, 2.6.5, 2.6.4, 2.6.3, 2.6.2, 2.6.1, 2.6, 2.5.2, 2.5.1, 2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata
Link Dependencies:
python
Run Dependencies:
python, py-importlib-metadata
Description:
This is a Python implementation of John Gruber's Markdown. It is almost completely compliant with the reference implementation, though there are a few very minor differences. See John's Syntax Documentation for the syntax rules.

py-markdown-it-py

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-attrs, py-typing-extensions
Run Dependencies:
python, py-attrs, py-typing-extensions
Description:
Markdown parser, done right. 100% CommonMark support, extensions, syntax plugins & high speed

py-markdown2

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A fast and complete Python implementation of Markdown.

py-markovify

Homepage:
Spack package:
Versions:
0.8.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-unidecode
Run Dependencies:
python, py-unidecode
Description:
Markovify is a simple, extensible Markov chain generator. Right now, its primary use is for building Markov models of large corpora of text and generating random sentences from that.

py-markupsafe

Homepage:
Spack package:
Versions:
2.0.1, 1.1.1, 1.0, 0.23, 0.22, 0.21, 0.20, 0.19
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
MarkupSafe is a library for Python that implements a unicode string that is aware of HTML escaping rules and can be used to implement automatic string escaping. It is used by Jinja 2, the Mako templating engine, the Pylons web framework and many more.

py-marshmallow

Homepage:
Spack package:
Versions:
3.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging
Run Dependencies:
python, py-packaging
Description:
marshmallow is an ORM/ODM/framework-agnostic library for converting complex datatypes, such as objects, to and from native Python datatypes.

py-matplotlib

Homepage:
Spack package:
Versions:
3.5.2, 3.5.1, 3.5.0, 3.4.3, 3.4.2, 3.4.1, 3.4.0, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.2, 3.2.1, 3.2.0, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.2, 3.0.0, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.0.2, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, freetype, qhull, libpng, py-setuptools, py-certifi, py-setuptools-scm, py-setuptools-scm-git-archive, py-cycler, py-fonttools, py-kiwisolver, py-numpy, py-packaging, pil, py-pyparsing, py-python-dateutil, py-pytz, py-subprocess32, py-functools32, py-backports-functools-lru-cache, py-six, ffmpeg, imagemagick, fontconfig, pkgconfig
Link Dependencies:
python, freetype, qhull, libpng, ffmpeg, imagemagick, fontconfig
Run Dependencies:
python, py-setuptools, py-cycler, py-fonttools, py-kiwisolver, py-numpy, py-packaging, pil, py-pyparsing, py-python-dateutil, py-pytz, py-subprocess32, py-functools32, py-backports-functools-lru-cache, py-six, tk, py-pyqt4, py-pyqt5, py-pygobject, py-wxpython, py-cairocffi, py-tornado, texlive, ghostscript
Test Dependencies:
ghostscript, py-pytest
Description:
Matplotlib is a comprehensive library for creating static, animated, and interactive visualizations in Python.

py-matplotlib-inline

Homepage:
Spack package:
Versions:
0.1.3, 0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-traitlets
Run Dependencies:
python, py-traitlets
Description:
Inline Matplotlib backend for Jupyter.

py-mayavi

Homepage:
Spack package:
Versions:
4.7.3, 4.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-apptools, py-envisage, py-numpy, py-pyface, py-pygments, py-traits, py-traitsui, vtk, py-pyqt5
Run Dependencies:
python, py-apptools, py-envisage, py-numpy, py-pyface, py-pygments, py-traits, py-traitsui, vtk, py-pyqt5
Description:
Mayavi: 3D visualization of scientific data in Python.

py-mccabe

Homepage:
Spack package:
Versions:
0.6.1, 0.6.0, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.0, 0.3.1, 0.3, 0.2.1, 0.2, 0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Ned's script to check McCabe complexity.

py-mdanalysis

Homepage:
Spack package:
Versions:
1.0.0, 0.20.1, 0.19.2, 0.19.1, 0.19.0, 0.18.0, 0.17.0, 0.16.2, 0.16.1, 0.16.0, 0.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-six, py-networkx, py-gsd, py-mmtf-python, py-mock, py-tqdm, py-joblib, py-numpy, py-biopython, py-griddataformats, py-matplotlib, py-scipy, py-scikit-learn, py-seaborn, py-netcdf4
Run Dependencies:
python, py-six, py-networkx, py-gsd, py-mmtf-python, py-mock, py-tqdm, py-joblib, py-numpy, py-biopython, py-griddataformats, py-matplotlib, py-scipy, py-scikit-learn, py-seaborn, py-netcdf4, hdf5
Description:
MDAnalysis is a Python toolkit to analyze molecular dynamics trajectories generated by a wide range of popular simulation packages including DL_Poly, CHARMM, Amber, NAMD, LAMMPS, and Gromacs. (See the lists of supported trajectory formats and topology formats.)

py-mdit-py-plugins

Homepage:
Spack package:
Versions:
0.2.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-markdown-it-py
Run Dependencies:
python, py-markdown-it-py
Description:
Collection of core plugins for markdown-it-py

py-mechanize

Homepage:
Spack package:
Versions:
0.4.3, 0.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-html5lib
Run Dependencies:
python, py-html5lib
Description:
Stateful programmatic web browsing.

py-meldmd

Homepage:
Spack package:
Versions:
0.4.20
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, amber, openmm, py-netcdf4, py-numpy, py-scipy, py-scikit-learn, py-parmed, py-tqdm, py-mpi4py
Link Dependencies:
cuda, amber, openmm
Run Dependencies:
python, py-netcdf4, py-numpy, py-scipy, py-scikit-learn, py-parmed, py-tqdm, py-mpi4py
Description:
MELD is a tool for inferring the structure of biomolecules from sparse, ambiguous, or noisy data.

py-memory-profiler

Homepage:
Spack package:
Versions:
0.60.0, 0.57.0, 0.47
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-psutil
Run Dependencies:
python, py-psutil
Description:
A module for monitoring memory usage of a python program

py-memprof

Homepage:
Spack package:
Versions:
0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-argparse, py-matplotlib
Run Dependencies:
python, py-argparse, py-matplotlib
Description:
memprof logs and plots the memory usage of all the variables during the execution of the decorated methods.

py-mercantile

Homepage:
Spack package:
Versions:
1.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click
Run Dependencies:
python, py-click
Description:
Web mercator XYZ tile utilities.

py-meshio

Homepage:
Spack package:
Versions:
5.0.1, 5.0.0, 4.4.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-importlib-metadata
Run Dependencies:
python, py-numpy, py-importlib-metadata
Description:
MeshIO is a Python library to read and write many mesh formats.

py-metasv

Homepage:
Spack package:
Versions:
0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-pybedtools, py-pysam, py-pyvcf, py-setuptools
Run Dependencies:
python, py-pybedtools, py-pysam, py-pyvcf
Description:
An accurate and integrative structural-variant caller for next generation sequencing

py-methylcode

Homepage:
Spack package:
Versions:
master
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pyfasta, py-bsddb3, bowtie
Link Dependencies:
py-numpy, py-pyfasta, py-bsddb3, bowtie
Run Dependencies:
python
Description:
MethylCoder is a single program that takes of bisulfite-treated reads and outputs per-base methylation data.

py-metpy

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-importlib-metadata, py-importlib-resources, py-matplotlib, py-numpy, py-pandas, py-pint, py-pooch, py-pyproj, py-scipy, py-traitlets, py-xarray
Run Dependencies:
python, py-importlib-metadata, py-importlib-resources, py-matplotlib, py-numpy, py-pandas, py-pint, py-pooch, py-pyproj, py-scipy, py-traitlets, py-xarray
Description:
Collection of tools for reading, visualizing and performing calculations with weather data.

py-mffpy

Homepage:
Spack package:
Versions:
0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz, py-numpy, py-deprecated
Run Dependencies:
python, py-pytz, py-numpy, py-deprecated
Description:
Reader and Writer for Philips' MFF file format.

py-mido

Homepage:
Spack package:
Versions:
1.2.9, 1.2.8, 1.2.7, 1.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Mido is a library for working with MIDI messages and ports. It's designed to be as straight forward and Pythonic as possible.

py-minio

Homepage:
Spack package:
Versions:
7.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-certifi, py-urllib3
Run Dependencies:
python, py-certifi, py-urllib3
Description:
MinIO Python SDK is Simple Storage Service (aka S3) client to perform bucket and object operations to any Amazon S3 compatible object storage service.

py-minrpc

Homepage:
Spack package:
Versions:
0.0.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Minimalistic RPC utility (only used within cpymad and pytao).

py-misopy

Homepage:
Spack package:
Versions:
0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pysam, py-matplotlib, samtools, bedtools2
Link Dependencies:
samtools, bedtools2
Run Dependencies:
python, py-numpy, py-scipy, py-pysam, py-matplotlib
Description:
MISO (Mixture of Isoforms) is a probabilistic framework that quantitates the expression level of alternatively spliced genes from RNA-Seq data, and identifies differentially regulated isoforms or exons across samples.

py-mistune

Homepage:
Spack package:
Versions:
2.0.2, 0.8.4, 0.8.3, 0.8.2, 0.8.1, 0.8, 0.7.4, 0.7.3, 0.7.2, 0.7.1, 0.7, 0.6, 0.5.1, 0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A sane Markdown parser with useful plugins and renderers.

py-mixedhtseq

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-htseq, py-ipython, py-pandas, py-setuptools
Run Dependencies:
python, py-numpy, py-htseq, py-ipython, py-pandas
Description:
HTSeq for mixed single and paired end reads

py-mizani

Homepage:
Spack package:
Versions:
0.7.3
Build Dependencies:
python, py-pip, py-wheel, py-matplotlib, py-numpy, py-palettable, py-pandas, py-setuptools
Run Dependencies:
python, py-matplotlib, py-numpy, py-palettable, py-pandas
Description:
Mizani is a scales package for graphics. It is based on Hadley Wickham's Scales package.

py-ml-collections

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-absl-py, py-six, py-contextlib2, py-dataclasses, py-typing
Run Dependencies:
python, py-setuptools, py-pyyaml, py-absl-py, py-six, py-contextlib2, py-dataclasses, py-typing
Description:
ML Collections is a library of Python collections designed for ML usecases.

py-mlperf-logging

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
MLPerf Compliance Logging Utilities and Helper Functions.

py-mlxtend

Homepage:
Spack package:
Versions:
0.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-matplotlib
Description:
Mlxtend (machine learning extensions) is a Python library of useful tools for the day-to-day data science tasks.

py-mmcv

Homepage:
Spack package:
Versions:
0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-addict, py-numpy, py-pyyaml, opencv, py-cython
Run Dependencies:
python, py-addict, py-numpy, py-pyyaml, opencv
Description:
MMCV is a foundational python library for computer vision research and supports many research projects in MMLAB, such as MMDetection and MMAction.

py-mmtf-python

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msgpack
Run Dependencies:
python, py-msgpack
Description:
The macromolecular transmission format (MMTF) is a binary encoding of biological structures.

py-mo-pack

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, libmo-unpack, py-setuptools, py-numpy, py-cython
Link Dependencies:
libmo-unpack
Run Dependencies:
python, py-numpy, py-cython
Description:
Packing methods used to encode and decode the data payloads of Met Office Unified Model 'fields'

py-mock

Homepage:
Spack package:
Versions:
4.0.3, 3.0.5, 3.0.3, 2.0.0, 1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-six, py-funcsigs
Run Dependencies:
python, py-six, py-funcsigs
Description:
mock is a library for testing in Python. It allows you to replace parts of your system under test with mock objects and make assertions about how they have been used.

py-modred

Homepage:
Spack package:
Versions:
2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-numpy
Description:
Modred is a parallelized library for finding modal decompositions and reduced-order models.

py-moltemplate

Homepage:
Spack package:
Versions:
2.5.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Moltemplate is a general cross-platform text-based molecule builder for LAMMPS.

py-monotonic

Homepage:
Spack package:
Versions:
1.6, 1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
An implementation of time.monotonic() for Python 2 & < 3.3

py-monty

Homepage:
Spack package:
Versions:
2021.8.17, 0.9.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Monty is the missing complement to Python.

py-more-itertools

Homepage:
Spack package:
Versions:
8.12.0, 8.11.0, 8.9.0, 7.2.0, 7.0.0, 5.0.0, 4.3.0, 4.1.0, 2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Additions to the standard Python itertools package.

py-motmetrics

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pandas, py-scipy, py-xmltodict, py-enum34, py-flake8, py-flake8-import-order, py-pytest, py-pytest-benchmark
Run Dependencies:
python, py-numpy, py-pandas, py-scipy, py-xmltodict, py-enum34, py-flake8, py-flake8-import-order, py-pytest, py-pytest-benchmark
Description:
The py-motmetrics library provides a Python implementation of metrics for benchmarking multiple object trackers (MOT).

py-motor

Homepage:
Spack package:
Versions:
2.5.1
Build Dependencies:
python, py-pip, py-wheel, py-pymongo, py-setuptools
Run Dependencies:
python, py-pymongo
Description:
async Python driver for MongoDB and Tornado or asyncio

py-mouseinfo

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python3-xlib, py-python-xlib, py-pyperclip, pil
Run Dependencies:
python, py-python3-xlib, py-python-xlib, py-pyperclip, pil
Description:
An application to display XY position and RGB color information for the pixel currently under the mouse. Works on Python 2 and 3. This is useful for GUI automation planning.

py-moviepy

Homepage:
Spack package:
Versions:
1.0.3, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-decorator, py-imageio, py-imageio-ffmpeg, py-tqdm, py-numpy, py-requests, py-proglog
Run Dependencies:
python, py-decorator, py-imageio, py-imageio-ffmpeg, py-tqdm, py-numpy, py-requests, py-proglog
Description:
MoviePy is a Python module for video editing, which can be used for basic operations (like cuts, concatenations, title insertions), video compositing (a.k.a. non-linear editing), video processing, or to create advanced effects. It can read and write the most common video formats, including GIF.

py-mpi4py

Homepage:
Spack package:
Versions:
master, 3.1.2, 3.1.1, 3.1.0, 3.0.3, 3.0.1, 3.0.0, 2.0.0, 1.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, mpi, py-cython, py-3to2
Link Dependencies:
python, mpi
Run Dependencies:
python
Description:
This package provides Python bindings for the Message Passing Interface (MPI) standard. It is implemented on top of the MPI-1/MPI-2 specification and exposes an API which grounds on the standard MPI-2 C++ bindings.

py-mpld3

Homepage:
Spack package:
Versions:
0.5.5, 0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-jinja2
Run Dependencies:
python, py-matplotlib, py-jinja2
Description:
An interactive D3js-based viewer which brings matplotlib graphics to the browser.

py-mplhep

Homepage:
Spack package:
Versions:
0.3.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-mplhep-data, py-matplotlib, py-numpy, py-packaging, py-uhi
Run Dependencies:
python, py-mplhep-data, py-matplotlib, py-numpy, py-packaging, py-uhi
Description:
Matplotlib styles for HEP

py-mplhep-data

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Font (Data) sub-package for mplhep

py-mpmath

Homepage:
Spack package:
Versions:
1.2.1, 1.1.0, 1.0.0, 0.19
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
A Python library for arbitrary-precision floating-point arithmetic.

py-mrcfile

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Link Dependencies:
python
Run Dependencies:
python, py-numpy
Description:
Python implementation of the MRC2014 file format, which is used in structural biology to store image and volume data.

py-msal

Homepage:
Spack package:
Versions:
1.3.0, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-pyjwt
Run Dependencies:
python, py-requests, py-pyjwt
Description:
The Microsoft Authentication Library (MSAL) for Python library enables your app to access the Microsoft Cloud by supporting authentication of users with Microsoft Azure Active Directory accounts (AAD) and Microsoft Accounts (MSA) using industry standard OAuth2 and OpenID Connect.

py-msal-extensions

Homepage:
Spack package:
Versions:
0.2.2, 0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msal, py-portalocker, py-pathlib2
Run Dependencies:
python, py-msal, py-portalocker, py-pathlib2
Description:
The Microsoft Authentication Extensions for Python offers secure mechanisms for client applications to perform cross-platform token cache serialization and persistence. It gives additional support to the Microsoft Authentication Library for Python (MSAL).

py-msgpack

Homepage:
Spack package:
Versions:
1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.6.2, 0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
MessagePack (de)serializer.

py-msgpack-numpy

Homepage:
Spack package:
Versions:
0.4.7.1, 0.4.7, 0.4.6, 0.4.5, 0.4.4.3, 0.4.4.2, 0.4.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-msgpack
Run Dependencies:
python, py-numpy, py-msgpack
Description:
This package provides encoding and decoding routines that enable the serialization and deserialization of numerical and array data types provided by numpy using the highly efficient msgpack format. Serialization of Python's native complex data types is also supported.

py-msrest

Homepage:
Spack package:
Versions:
0.6.21, 0.6.16
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-requests-oauthlib, py-isodate, py-certifi, py-enum34, py-typing
Run Dependencies:
python, py-requests, py-requests-oauthlib, py-isodate, py-certifi, py-enum34, py-typing
Description:
AutoRest swagger generator Python client runtime.

py-msrestazure

Homepage:
Spack package:
Versions:
0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-adal
Run Dependencies:
python, py-msrest, py-adal
Description:
AutoRest swagger generator Python client runtime. Azure-specific module.

py-multi-key-dict

Homepage:
Spack package:
Versions:
2.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Multi key dictionary implementation

py-multidict

Homepage:
Spack package:
Versions:
6.0.2, 5.2.0, 5.1.0, 4.7.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Multidict is dict-like collection of key-value pairs where key might be occurred more than once in the container.

py-multipledispatch

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
A relatively sane approach to multiple dispatch in Python.

py-multiprocess

Homepage:
Spack package:
Versions:
0.70.12.2, 0.70.9, 0.70.7, 0.70.5, 0.70.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dill
Run Dependencies:
python, py-dill
Description:
Better multiprocessing and multithreading in Python

py-multiqc

Homepage:
Spack package:
Versions:
1.7, 1.5, 1.3, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click, py-jinja2, py-lzstring, py-future, py-spectra, py-matplotlib, py-numpy, py-pyyaml, py-simplejson, py-requests, py-enum34, py-markdown
Link Dependencies:
python
Run Dependencies:
python, py-click, py-jinja2, py-lzstring, py-future, py-spectra, py-matplotlib, py-numpy, py-pyyaml, py-simplejson, py-requests, py-enum34, py-markdown
Description:
MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a large number of common bioinformatics tools.

py-munch

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
A Munch is a Python dictionary that provides attribute-style access (a la JavaScript objects).

py-murmurhash

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Cython bindings for MurmurHash.

py-mutagen

Homepage:
Spack package:
Versions:
1.45.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Read and write audio tags for many formats.

py-mx

Homepage:
Spack package:
Versions:
3.2.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The eGenix.com mx Base Distribution for Python is a collection of professional quality software tools which enhance Python's usability in many important areas such as fast text searching, date/time processing and high speed data types.

py-mxfold2

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-torch, py-torchvision, py-setuptools, py-setuptools-cpp, cmake
Run Dependencies:
python, py-wheel, py-torch, py-torchvision
Description:
MXfold2: RNA secondary structure prediction using deep learning with thermodynamic integration

py-myhdl

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Python as a Hardware Description Language

py-mypy

Homepage:
Spack package:
Versions:
0.931, 0.930, 0.921, 0.920, 0.910, 0.900, 0.800, 0.790, 0.740, 0.670
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typed-ast, py-typing-extensions, py-typing, py-mypy-extensions, py-tomli, py-toml
Run Dependencies:
python, py-setuptools, py-typed-ast, py-typing-extensions, py-typing, py-mypy-extensions, py-tomli, py-toml
Description:
Optional static typing for Python.

py-mypy-extensions

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing
Run Dependencies:
python, py-typing
Description:
Experimental type system extensions for programs checked with the mypy typechecker.

py-mysql-connector-python

Homepage:
Spack package:
Versions:
8.0.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-protobuf
Run Dependencies:
python, py-setuptools, py-protobuf
Description:
MySQL Connector/Python is implementing the MySQL Client/Server protocol completely in Python. No MySQL libraries are needed, and no compilation is necessary to run this Python DB API v2.0 compliant driver.

py-mysqlclient

Homepage:
Spack package:
Versions:
1.4.6, 1.4.5, 1.4.4, 1.3.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, mysql
Link Dependencies:
mysql
Run Dependencies:
python
Description:
Python interface to MySQL

py-mysqldb1

Homepage:
Spack package:
Versions:
1.2.5
Build Dependencies:
python, py-pip, py-wheel, mysql, py-setuptools
Link Dependencies:
mysql
Run Dependencies:
python
Description:
Legacy mysql bindings for python

py-nanotime

Homepage:
Spack package:
Versions:
0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The nanotime module provides a time object that keeps time as the number of nanoseconds since the UNIX epoch. In other words, it is a 64bit UNIX timestamp with nanosecond precision.

py-nara-wpe

Homepage:
Spack package:
Versions:
0.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pathlib2, py-numpy, py-tqdm, py-soundfile, py-bottleneck, py-click
Run Dependencies:
python, py-pathlib2, py-numpy, py-tqdm, py-soundfile, py-bottleneck, py-click
Description:
Background noise and signal reverberation due to reflections in an enclosure are the two main impairments in acoustic signal processing and far-field speech recognition. This work addresses signal dereverberation techniques based on WPE for speech recognition and other far-field applications. WPE is a compelling algorithm to blindly dereverberate acoustic signals based on long-term linear prediction.

py-natsort

Homepage:
Spack package:
Versions:
7.1.1, 7.1.0, 7.0.1, 7.0.0, 6.2.1, 6.2.0, 6.1.0, 6.0.0, 5.5.0, 5.4.1, 5.2.0, 5.1.1, 5.1.0, 5.0.3, 5.0.2, 5.0.1, 5.0.0, 4.0.4, 4.0.3, 4.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple yet flexible natural sorting in Python.

py-nbclassic

Homepage:
Spack package:
Versions:
0.3.5, 0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jupyter-packaging11, py-jupyter-server, py-notebook
Run Dependencies:
python, py-jupyter-server, py-notebook
Description:
Jupyter Notebook as a Jupyter Server Extension.

py-nbclient

Homepage:
Spack package:
Versions:
0.5.5, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-traitlets, py-jupyter-client, py-nbformat, py-async-generator, py-nest-asyncio
Run Dependencies:
python, py-traitlets, py-jupyter-client, py-nbformat, py-async-generator, py-nest-asyncio
Description:
A client library for executing notebooks. Formally nbconvert's ExecutePreprocessor.

py-nbformat

Homepage:
Spack package:
Versions:
5.1.3, 5.0.7, 4.4.0, 4.1.0, 4.0.1, 4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ipython-genutils, py-traitlets, py-jsonschema, py-jupyter-core
Run Dependencies:
python, py-ipython-genutils, py-traitlets, py-jsonschema, py-jupyter-core
Description:
The Jupyter Notebook format

py-nbmake

Homepage:
Spack package:
Versions:
0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-poetry-core, py-pygments, py-ipykernel, py-nbclient, py-nbformat, py-pathlib, py-pydantic, py-pytest
Run Dependencies:
python, py-pygments, py-ipykernel, py-nbclient, py-nbformat, py-pathlib, py-pydantic, py-pytest
Description:
Pytest plugin for testing notebooks.

py-nbsphinx

Homepage:
Spack package:
Versions:
0.8.8, 0.8.7, 0.8.1, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils, py-jinja2, py-nbconvert, py-traitlets, py-nbformat, py-sphinx
Run Dependencies:
python, py-docutils, py-jinja2, py-nbconvert, py-traitlets, py-nbformat, py-sphinx, pandoc
Description:
nbsphinx is a Sphinx extension that provides a source parser for *.ipynb files.

py-nc-time-axis

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cftime, py-matplotlib, py-numpy, py-six
Run Dependencies:
python, py-cftime, py-matplotlib, py-numpy, py-six
Description:
cftime support for matplotlib axis.

py-ndg-httpsclient

Homepage:
Spack package:
Versions:
0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyopenssl, py-pyasn1
Run Dependencies:
python, py-pyopenssl, py-pyasn1
Description:
Provides enhanced HTTPS support for httplib and urllib2 using PyOpenSSL.

py-neo

Homepage:
Spack package:
Versions:
0.8.0, 0.5.2, 0.4.1, 0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-quantities
Run Dependencies:
python, py-numpy, py-quantities
Description:
Neo is a package for representing electrophysiology data in Python, together with support for reading a wide range of neurophysiology file formats

py-neobolt

Homepage:
Spack package:
Versions:
1.7.16
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Neo4j Bolt connector for Python

py-neotime

Homepage:
Spack package:
Versions:
1.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz, py-six
Run Dependencies:
python, py-pytz, py-six
Description:
Nanosecond resolution temporal types

py-neovim-remote

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-psutil, py-pynvim
Run Dependencies:
python, py-psutil, py-pynvim
Description:
Remote opening and control for neovim: nvr

py-nest-asyncio

Homepage:
Spack package:
Versions:
1.5.4, 1.5.1, 1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Patch asyncio to allow nested event loops.

py-nestle

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
Nested sampling algorithms for evaluating Bayesian evidence.

py-netaddr

Homepage:
Spack package:
Versions:
0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-resources
Run Dependencies:
python, py-importlib-resources
Description:
A system-independent network address manipulation library for Python

py-netcdf4

Homepage:
Spack package:
Versions:
1.5.8, 1.5.3, 1.4.2, 1.2.7, 1.2.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-cftime, py-mpi4py, netcdf-c, hdf5
Link Dependencies:
python, py-numpy, netcdf-c, hdf5
Run Dependencies:
python, py-numpy, py-cftime, py-mpi4py
Description:
Python interface to the netCDF Library.

py-netifaces

Homepage:
Spack package:
Versions:
0.10.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Portable network interface information

py-netket

Homepage:
Spack package:
Versions:
2.1.1, 2.1, 2.0, 1.0.5, 1.0.4, 1.0.3, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cmake, blas, mpi, py-numpy, py-scipy, py-mpi4py, py-numba, py-tqdm
Link Dependencies:
blas, mpi
Run Dependencies:
python, py-numpy, py-scipy, py-mpi4py, py-numba, py-tqdm
Description:
NetKet is an open-source project, delivering cutting-edge methods for the study of many-body quantum systems with artificial neural networks and machine learning techniques.

py-networkit

Homepage:
Spack package:
Versions:
9.0, 8.1, 8.0, 7.1, 7.0, 6.1
Build Dependencies:
python, py-pip, py-wheel, cmake, libnetworkit, llvm-openmp, ninja, py-cython, py-numpy, py-scipy, py-setuptools
Link Dependencies:
libnetworkit, llvm-openmp
Run Dependencies:
python, py-numpy, py-scipy
Description:
NetworKit is a growing open-source toolkit for large-scale network analysis. Its aim is to provide tools for the analysis of large networks in the size range from thousands to billions of edges. For this purpose, it implements efficient graph algorithms, many of them parallel to utilize multicore architectures. These are meant to compute standard measures of network analysis, such as degree sequences, clustering coefficients, and centrality measures. In this respect, NetworKit is comparable to packages such as NetworkX, albeit with a focus on parallelism and scalability.

py-networkx

Homepage:
Spack package:
Versions:
2.7.1, 2.6.3, 2.5.1, 2.4, 2.3, 2.2, 2.1, 2.0, 1.11, 1.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-decorator
Run Dependencies:
python, py-decorator
Description:
NetworkX is a Python package for the creation, manipulation, and study of the structure, dynamics, and functions of complex networks.

py-neurokit2

Homepage:
Spack package:
Versions:
0.1.5, 0.1.4.1, 0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-numpy, py-pandas, py-scipy, py-scikit-learn, py-matplotlib
Run Dependencies:
python, py-numpy, py-pandas, py-scipy, py-scikit-learn, py-matplotlib
Description:
The Python Toolbox for Neurophysiological Signal Processing. This package is the continuation of NeuroKit 1. It's a user-friendly package providing easy access to advanced biosignal processing routines. Researchers and clinicians without extensive knowledge of programming or biomedical signal processing can analyze physiological data with only two lines of code.

py-neurolab

Homepage:
Spack package:
Versions:
0.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Simple and powerfull neural network library for python

py-neurora

Homepage:
Spack package:
Versions:
1.1.6.1, 1.1.5.16
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-mne, py-nibabel, py-matplotlib, py-nilearn, py-scikit-learn, py-scikit-image
Run Dependencies:
python, py-numpy, py-scipy, py-mne, py-nibabel, py-matplotlib, py-nilearn, py-scikit-learn, py-scikit-image
Description:
A Python Toolbox for Multimodal Neural Data Representation Analysis.

py-nibabel

Homepage:
Spack package:
Versions:
3.2.2, 3.2.1, 2.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-packaging, py-six, py-bz2file
Run Dependencies:
python, py-setuptools, py-numpy, py-packaging, py-six, py-bz2file
Description:
Access a multitude of neuroimaging data formats

py-nilearn

Homepage:
Spack package:
Versions:
0.8.1, 0.8.0, 0.7.1, 0.6.2, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-nibabel, py-pandas, py-requests, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-nibabel, py-pandas, py-requests, py-matplotlib
Description:
Statistical learning for neuroimaging in Python.

py-ninja

Homepage:
Spack package:
Versions:
1.10.2
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-scikit-build, ninja
Run Dependencies:
python, ninja
Description:
Ninja is a small build system with a focus on speed.

py-nistats

Homepage:
Spack package:
Versions:
0.0.1rc0, 0.0.1b2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, py-nibabel, py-nilearn, py-pandas
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-nibabel, py-nilearn, py-pandas
Description:
Modeling and Statistical analysis of fMRI data in Python.

py-nitransforms

Homepage:
Spack package:
Versions:
21.0.0, 20.0.0rc5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-setuptools-scm-git-archive, py-toml, py-numpy, py-scipy, py-nibabel, py-h5py
Run Dependencies:
python, py-numpy, py-scipy, py-nibabel, py-h5py
Description:
NiTransforms -- Neuroimaging spatial transforms in Python.

py-nltk

Homepage:
Spack package:
Versions:
3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-joblib, py-click, py-regex, py-tqdm
Run Dependencies:
python, py-setuptools, py-joblib, py-click, py-regex, py-tqdm
Description:
The Natural Language Toolkit (NLTK) is a Python package for natural language processing.

py-nodeenv

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Node.js virtual environment

py-nose

Homepage:
Spack package:
Versions:
1.3.7, 1.3.6, 1.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
nose extends the test loading and running features of unittest, making it easier to write, find and run tests.

py-nose-cov

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nose, py-cov-core
Run Dependencies:
python, py-nose, py-cov-core
Description:
This plugin produces coverage reports.

py-nose2

Homepage:
Spack package:
Versions:
0.9.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-cov-core, py-coverage, py-mock
Run Dependencies:
python, py-six, py-cov-core, py-coverage, py-mock
Description:
unittest2 with plugins, the succesor to nose

py-nosexcover

Homepage:
Spack package:
Versions:
1.0.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nose, py-coverage
Run Dependencies:
python, py-nose, py-coverage
Description:
A companion to the built-in nose.plugins.cover, this plugin will write out an XML coverage report to a file named coverage.xml.

py-notebook

Homepage:
Spack package:
Versions:
6.4.5, 6.1.4, 6.0.3, 6.0.1, 6.0.0, 5.7.8, 5.7.6, 5.7.5, 5.7.4, 5.7.3, 5.7.2, 5.7.1, 5.7.0, 4.2.3, 4.2.2, 4.2.1, 4.2.0, 4.1.0, 4.0.6, 4.0.4, 4.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jinja2, py-tornado, py-pyzmq, py-argon2-cffi, py-ipython-genutils, py-traitlets, py-jupyter-core, py-jupyter-client, py-nbformat, py-nbconvert, py-ipykernel, py-send2trash, py-terminado, py-prometheus-client
Run Dependencies:
python, py-setuptools, py-jinja2, py-tornado, py-pyzmq, py-argon2-cffi, py-ipython-genutils, py-traitlets, py-jupyter-core, py-jupyter-client, py-nbformat, py-nbconvert, py-ipykernel, py-send2trash, py-terminado, py-prometheus-client
Description:
Jupyter Interactive Notebook

py-npx

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-numpy
Run Dependencies:
python, py-numpy
Description:
Some useful extensions for NumPy

py-ntlm-auth

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ordereddict
Run Dependencies:
python, py-ordereddict
Description:
Creates NTLM authentication structures.

py-ntplib

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple interface to query NTP servers from Python.

py-num2words

Homepage:
Spack package:
Versions:
0.5.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docopt
Run Dependencies:
python, py-docopt
Description:
Modules to convert numbers to words. Easily extensible.

py-numba

Homepage:
Spack package:
Versions:
0.55.1, 0.54.0, 0.51.1, 0.50.1, 0.48.0, 0.40.1, 0.35.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools, py-llvmlite, py-argparse, py-funcsigs, py-enum34, py-singledispatch
Run Dependencies:
python, py-numpy, py-setuptools, py-llvmlite, py-argparse, py-funcsigs, py-enum34, py-singledispatch
Description:
NumPy aware dynamic Python compiler using LLVM

py-numcodecs

Homepage:
Spack package:
Versions:
master, 0.7.3, 0.6.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-cython, py-numpy, py-msgpack
Link Dependencies:
python
Run Dependencies:
python, py-numpy, py-msgpack
Description:
Numcodecs is a Python package providing buffer compression and transformation codecs for use in data storage and communication applications.

py-numexpr

Homepage:
Spack package:
Versions:
2.7.3, 2.7.2, 2.7.0, 2.6.9, 2.6.5, 2.6.1, 2.5, 2.4.6
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
Fast numerical expression evaluator for NumPy

py-numexpr3

Homepage:
Spack package:
Versions:
3.0.1a1
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
Numexpr3 is a fast numerical expression evaluator for NumPy. With it, expressions that operate on arrays (like "3*a+4*b") are accelerated and use less memory than doing the same calculation in Python. In addition, its multi-threaded capabilities can make use of all your cores, which may accelerate computations, most specially if they are not memory- bounded (e.g. those using transcendental functions). Compared to NumExpr 2.6, functions have been re-written in a fashion such that gcc can auto- vectorize them with SIMD instruction sets such as SSE2 or AVX2, if your processor supports them. Use of a newer version of gcc such as 5.4 is strongly recommended.

py-numpy

Homepage:
Spack package:
Versions:
main, 1.22.4, 1.22.3, 1.22.2, 1.22.1, 1.22.0, 1.21.6, 1.21.5, 1.21.4, 1.21.3, 1.21.2, 1.21.1, 1.21.0, 1.20.3, 1.20.2, 1.20.1, 1.20.0, 1.19.5, 1.19.4, 1.19.3, 1.19.2, 1.19.1, 1.19.0, 1.18.5, 1.18.4, 1.18.3, 1.18.2, 1.18.1, 1.18.0, 1.17.5, 1.17.4, 1.17.3, 1.17.2, 1.17.1, 1.17.0, 1.16.6, 1.16.5, 1.16.4, 1.16.3, 1.16.2, 1.16.1, 1.16.0, 1.15.4, 1.15.3, 1.15.2, 1.15.1, 1.15.0, 1.14.6, 1.14.5, 1.14.4, 1.14.3, 1.14.2, 1.14.1, 1.14.0, 1.13.3, 1.13.1, 1.13.0, 1.12.1, 1.12.0, 1.11.3, 1.11.2, 1.11.1, 1.11.0, 1.10.4, 1.9.3, 1.9.2, 1.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, blas, lapack
Link Dependencies:
python, blas, lapack
Run Dependencies:
python, py-setuptools
Test Dependencies:
py-nose, py-pytest, py-hypothesis
Description:
NumPy is the fundamental package for scientific computing with Python. It contains among other things: a powerful N-dimensional array object, sophisticated (broadcasting) functions, tools for integrating C/C++ and Fortran code, and useful linear algebra, Fourier transform, and random number capabilities

py-numpydoc

Homepage:
Spack package:
Versions:
1.1.0, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-jinja2
Link Dependencies:
python
Run Dependencies:
python
Description:
numpydoc - Numpy's Sphinx extensions

py-nvidia-ml-py

Homepage:
Spack package:
Versions:
11.450.51
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python Bindings for the NVIDIA Management Library.

py-nvidia-ml-py3

Homepage:
Spack package:
Versions:
7.352.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python Bindings for the NVIDIA Management Library.

py-oauth2client

Homepage:
Spack package:
Versions:
4.1.3, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-httplib2, py-pyasn1, py-pyasn1-modules, py-rsa, py-six
Run Dependencies:
python, py-httplib2, py-pyasn1, py-pyasn1-modules, py-rsa, py-six
Description:
OAuth 2.0 client library. Note: oauth2client is now deprecated. No more features will be added to the libraries and the core team is turning down support. We recommend you use google-auth and oauthlib.

py-oauthlib

Homepage:
Spack package:
Versions:
3.1.1, 3.1.0, 3.0.1, 2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyjwt, py-blinker, py-cryptography
Run Dependencies:
python, py-pyjwt, py-blinker, py-cryptography
Description:
A generic, spec-compliant, thorough implementation of the OAuth request-signing logic

py-odc-geo

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-affine, py-cachetools, py-numpy, py-pyproj, py-shapely
Run Dependencies:
python, py-affine, py-cachetools, py-numpy, py-pyproj, py-shapely
Description:
Geometry Classes and Operations (opendatacube).

py-olefile

Homepage:
Spack package:
Versions:
0.44
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python package to parse, read and write Microsoft OLE2 files

py-omegaconf

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-antlr4-python3-runtime, py-pyyaml, py-dataclasses, java
Run Dependencies:
python, py-antlr4-python3-runtime, py-pyyaml, py-dataclasses
Description:
A hierarchical configuration system, with support for merging configurations from multiple sources (YAML config files, dataclasses/objects and CLI arguments) providing a consistent API regardless of how the configuration was created.

py-onnx

Homepage:
Spack package:
Versions:
1.8.1, 1.6.0, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, protobuf, py-protobuf, py-numpy, py-six, py-typing, py-typing-extensions, cmake, py-pytest-runner
Link Dependencies:
protobuf
Run Dependencies:
python, py-protobuf, py-numpy, py-six, py-typing, py-typing-extensions
Description:
Open Neural Network Exchange (ONNX) is an open ecosystem that empowers AI developers to choose the right tools as their project evolves. ONNX provides an open source format for AI models, both deep learning and traditional ML. It defines an extensible computation graph model, as well as definitions of built-in operators and standard data types. Currently we focus on the capabilities needed for inferencing (scoring).

py-onnx-runtime

Homepage:
Spack package:
Versions:
1.10.0, 1.7.2
Build Dependencies:
python, py-pip, py-wheel, cmake, ninja, protobuf, py-protobuf, py-setuptools, py-numpy, py-sympy, py-packaging, py-cerberus, py-onnx, py-flatbuffers, zlib, libpng, py-pybind11, cuda, cudnn, iconv, re2
Link Dependencies:
protobuf, zlib, libpng, cuda, cudnn, iconv, re2
Run Dependencies:
python, py-protobuf, py-numpy, py-sympy, py-packaging, py-cerberus, py-onnx, py-flatbuffers, iconv
Description:
ONNX Runtime is a performance-focused complete scoring engine for Open Neural Network Exchange (ONNX) models, with an open extensible architecture to continually address the latest developments in AI and Deep Learning. ONNX Runtime stays up to date with the ONNX standard with complete implementation of all ONNX operators, and supports all ONNX releases (1.2+) with both future and backwards compatibility.

py-onnxconverter-common

Homepage:
Spack package:
Versions:
1.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-protobuf, py-onnx
Run Dependencies:
python, py-numpy, py-protobuf, py-onnx
Description:
ONNX Converter and Optimization Tools

py-onnxmltools

Homepage:
Spack package:
Versions:
1.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-onnx, py-skl2onnx, py-onnx-runtime
Run Dependencies:
python, py-numpy, py-onnx, py-skl2onnx, py-onnx-runtime
Description:
Converts Machine Learning models to ONNX

py-ont-fast5-api

Homepage:
Spack package:
Versions:
0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-h5py, py-numpy
Run Dependencies:
python, py-h5py, py-numpy
Description:
This project provides classes and utility functions for working with read fast5 files. It provides an abstraction layer between the underlying h5py library and the various concepts central to read fast5 files, such as "reads", "analyses", "analysis summaries", and "analysis datasets". Ideally all interaction with a read fast5 file should be possible via this API, without having to directly invoke the h5py library.

py-opcodes

Homepage:
Spack package:
Versions:
0.3.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Database of Processor Instructions/Opcodes.

py-opencensus

Homepage:
Spack package:
Versions:
0.7.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-opencensus-context, py-google-api-core
Run Dependencies:
python, py-opencensus-context, py-google-api-core
Description:
A stats collection and distributed tracing framework.

py-opencensus-context

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-contextvars
Run Dependencies:
python, py-contextvars
Description:
OpenCensus Runtime Context.

py-openidc-client

Homepage:
Spack package:
Versions:
0.6.0, 0.5.0, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests
Run Dependencies:
python, py-requests
Description:
A python OpenID Connect client with token caching and management

py-openmc

Homepage:
Spack package:
Versions:
develop, master, 0.13.0, 0.12.2, 0.12.1, 0.12.0, 0.11.0
Build Dependencies:
python, py-pip, py-wheel, openmc, git, py-cython, py-h5py, py-ipython, py-lxml, py-matplotlib, py-mpi4py, py-numpy, py-pandas, py-setuptools, py-scipy, py-uncertainties
Run Dependencies:
python, openmc, py-h5py, py-ipython, py-lxml, py-matplotlib, py-mpi4py, py-numpy, py-pandas, py-scipy, py-uncertainties
Description:
OpenMC is a community-developed Monte Carlo neutron and photon transport simulation code. It is capable of performing fixed source, k-eigenvalue, and subcritical multiplication calculations on models built using either a constructive solid geometry or CAD representation. OpenMC supports both continuous-energy and multigroup transport. The continuous-energy particle interaction data is based on a native HDF5 format that can be generated from ACE files produced by NJOY. Parallelism is enabled via a hybrid MPI and OpenMP programming model.

py-openpmd-validator

Homepage:
Spack package:
Versions:
1.1.0.3, 1.1.0.2, 1.1.0.1, 1.0.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-python-dateutil, py-h5py
Run Dependencies:
python, py-numpy, py-python-dateutil, py-h5py
Description:
Validator and Example Scripts for the openPMD markup. openPMD is an open standard for particle-mesh data files.

py-openpmd-viewer

Homepage:
Spack package:
Versions:
1.4.0, 1.3.0, 1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-setuptools, py-tqdm, py-h5py, openpmd-api, py-ipywidgets, py-jupyter, py-numba, py-matplotlib, py-wget
Run Dependencies:
python, py-numpy, py-scipy, py-tqdm, py-h5py, openpmd-api, py-ipywidgets, py-jupyter, py-numba, py-matplotlib, py-wget
Description:
Python visualization tools for openPMD files

py-openpyxl

Homepage:
Spack package:
Versions:
3.0.3, 2.4.5, 2.2.0, 1.8.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jdcal, py-et-xmlfile
Run Dependencies:
python, py-jdcal, py-et-xmlfile
Description:
A Python library to read/write Excel 2010 xlsx/xlsm files

py-openslide-python

Homepage:
Spack package:
Versions:
1.1.2, 1.1.1
Build Dependencies:
python, py-pip, py-wheel, openslide, py-setuptools, pil
Link Dependencies:
openslide
Run Dependencies:
python, pil
Description:
OpenSlide Python is a Python interface to the OpenSlide library.

py-opentuner

Homepage:
Spack package:
Versions:
0.8.7, 0.8.2, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-argparse, py-fn-py, py-future, py-numpy, py-setuptools, py-sqlalchemy
Run Dependencies:
python, py-argparse, py-fn-py, py-future, py-numpy, py-sqlalchemy
Description:
An extensible framework for program autotuning.

py-opppy

Homepage:
Spack package:
Versions:
master, 0_1_5, 0_1_4, 0_1_3, 0_1_2, 0_1_1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-numpy, py-scipy, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib
Description:
The Output Parse-Plot Python (OPPPY) library is a python based data analysis library designed to extract, store, and plot information from output and dump files generated by scientific software packages.

py-opt-einsum

Homepage:
Spack package:
Versions:
3.3.0, 3.2.1, 3.2.0, 3.1.0, 2.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Optimized Einsum: A tensor contraction order optimizer.

py-or-tools

Homepage:
Spack package:
Versions:
7.8
Build Dependencies:
cmake, py-pip, py-wheel, py-setuptools, py-numpy, py-protobuf, protobuf, py-six, gflags, glog, abseil-cpp, cbc, cgl, clp, osi, coinutils, swig, python, py-virtualenv, scipoptsuite
Link Dependencies:
protobuf, gflags, glog, abseil-cpp, cbc, cgl, clp, osi, coinutils, swig, scipoptsuite
Run Dependencies:
py-numpy, py-protobuf, py-six, python
Description:
This project hosts operations research tools developed at Google and made available as open source under the Apache 2.0 License.

py-ordered-set

Homepage:
Spack package:
Versions:
4.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
An OrderedSet is a mutable data structure that is a hybrid of a list and a set. It remembers the order of its entries, and every entry has an index number that can be looked up.

py-ordereddict

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A drop-in substitute for Py2.7's new collections. OrderedDict that works in Python 2.4-2.6.

py-os-service-types

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-pbr, py-setuptools
Run Dependencies:
python
Description:
Python library for consuming OpenStack sevice-types-authority data

py-oset

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Set that remembers original insertion order.

py-oslo-config

Homepage:
Spack package:
Versions:
8.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-debtcollector, py-netaddr, py-stevedore, py-oslo-i18n, py-rfc3986, py-pyyaml, py-requests, py-importlib-metadata
Run Dependencies:
python, py-debtcollector, py-netaddr, py-stevedore, py-oslo-i18n, py-rfc3986, py-pyyaml, py-requests, py-importlib-metadata
Description:
The Oslo configuration API supports parsing command line arguments and .ini style configuration files.

py-oslo-i18n

Homepage:
Spack package:
Versions:
5.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-six
Run Dependencies:
python, py-pbr, py-six
Description:
The oslo.i18n library contain utilities for working with internationalization (i18n) features, especially translation for text strings in an application or library.

py-oslo-serialization

Homepage:
Spack package:
Versions:
4.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-msgpack, py-oslo-utils, py-pytz
Run Dependencies:
python, py-msgpack, py-oslo-utils, py-pytz
Description:
The oslo.serialization library provides support for representing objects in transmittable and storable formats, such as Base64, JSON and MessagePack.

py-oslo-utils

Homepage:
Spack package:
Versions:
4.9.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-iso8601, py-oslo-i18n, py-pytz, py-netaddr, py-netifaces, py-debtcollector, py-pyparsing, py-packaging
Run Dependencies:
python, py-iso8601, py-oslo-i18n, py-pytz, py-netaddr, py-netifaces, py-debtcollector, py-pyparsing, py-packaging
Description:
The oslo.utils library provides support for common utility type functions, such as encoding, exception handling, string manipulation, and time handling.

py-osqp

Homepage:
Spack package:
Versions:
0.6.1
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-numpy, py-scipy, py-future
Run Dependencies:
python, py-numpy, py-scipy, py-future
Description:
OSQP: The Operator Splitting QP Solver

py-overpy

Homepage:
Spack package:
Versions:
0.4, 0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner
Run Dependencies:
python
Description:
A Python Wrapper to access the Overpass API.

py-owslib

Homepage:
Spack package:
Versions:
0.25.0, 0.17.1, 0.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-pytz, py-requests, py-pyproj, py-pyyaml, py-dataclasses
Run Dependencies:
python, py-python-dateutil, py-pytz, py-requests, py-pyproj, py-pyyaml, py-dataclasses
Description:
OWSLib is a Python package for client programming with Open Geospatial Consortium (OGC) web service (hence OWS) interface standards, and their related content models.

py-pacifica-downloader

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-requests
Run Dependencies:
python, py-requests
Description:
Python Pacifica Download Library

py-pacifica-namespace

Homepage:
Spack package:
Versions:
0.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Python Pacifica Namespace Library

py-pacifica-uploader

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-requests
Run Dependencies:
python, py-requests
Description:
Python Pacifica Uploader Library

py-packaging

Homepage:
Spack package:
Versions:
21.3, 21.0, 20.9, 19.2, 19.1, 19.0, 17.1, 16.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing, py-six, py-attrs
Run Dependencies:
python, py-pyparsing, py-six, py-attrs
Description:
Core utilities for Python packages.

py-pager

Homepage:
Spack package:
Versions:
3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module that pages output to the screen, reads keys and console dimensions without executing external utils.

py-palettable

Homepage:
Spack package:
Versions:
3.3.0, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Color palettes for Python.

py-pamela

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python wrapper for PAM

py-pandas

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.4.0, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.5, 1.2.4, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.5, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.25.3, 0.25.2, 0.25.1, 0.25.0, 0.24.2, 0.24.1, 0.23.4, 0.21.1, 0.20.0, 0.19.2, 0.19.0, 0.18.0, 0.16.1, 0.16.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-numpy, py-python-dateutil, py-pytz, py-numexpr, py-bottleneck
Run Dependencies:
python, py-numpy, py-python-dateutil, py-pytz, py-numexpr, py-bottleneck
Description:
pandas is a fast, powerful, flexible and easy to use open source data analysis and manipulation tool, built on top of the Python programming language.

py-pandocfilters

Homepage:
Spack package:
Versions:
1.5.0, 1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A python module for writing pandoc filters

py-param

Homepage:
Spack package:
Versions:
1.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Param is a library providing Parameters: Python attributes extended to have features such as type and range checking, dynamically generated values, documentation strings, default values, etc., each of which is inherited from parent classes if not specified in a subclass.

py-parameterized

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Parameterized testing with any Python test framework.

py-paramiko

Homepage:
Spack package:
Versions:
2.7.1, 2.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-bcrypt, py-cryptography, py-pyasn1, py-pynacl, py-invoke
Run Dependencies:
python, py-bcrypt, py-cryptography, py-pyasn1, py-pynacl, py-invoke
Description:
SSH2 protocol library

py-paramz

Homepage:
Spack package:
Versions:
0.9.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six, py-decorator
Run Dependencies:
python, py-numpy, py-scipy, py-six, py-decorator
Description:
The Parameterization Framework.

py-parmed

Homepage:
Spack package:
Versions:
3.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
ParmEd is a general tool for aiding in investigations of biomolecular systems using popular molecular simulation packages, like Amber, CHARMM, and OpenMM written in Python.

py-parse

Homepage:
Spack package:
Versions:
1.18.0, 1.12.1, 1.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
parse() is the opposite of format()

py-parsedatetime

Homepage:
Spack package:
Versions:
2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Parse human-readable date/time strings.

py-parsimonious

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
(Soon to be) the fastest pure-Python PEG parser

py-parso

Homepage:
Spack package:
Versions:
0.8.2, 0.8.1, 0.7.1, 0.6.1, 0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Parso is a Python parser that supports error recovery and round-trip parsing for different Python versions (in multiple Python versions). Parso is also able to list multiple syntax errors in your python file.

py-partd

Homepage:
Spack package:
Versions:
1.1.0, 0.3.10, 0.3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-locket, py-toolz
Run Dependencies:
python, py-locket, py-toolz
Description:
Key-value byte store with appendable values.

py-particle

Homepage:
Spack package:
Versions:
master, 0.15.1, 0.14.1, 0.11.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-attrs, py-hepunits, py-importlib-resources, py-enum34, py-typing
Run Dependencies:
python, py-attrs, py-hepunits, py-importlib-resources, py-enum34, py-typing
Description:
Particle provides a pythonic interface to the Particle Data Group (PDG) particle data tables and particle identification codes, with extended particle information and extra goodies.

py-pastel

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core
Run Dependencies:
python
Description:
Bring colors to your terminal.

py-path-py

Homepage:
Spack package:
Versions:
12.0.1, 5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A module wrapper for os.path

py-pathlib

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Object-oriented filesystem paths. Attention: this backport module isn't maintained anymore. If you want to report issues or contribute patches, please consider the pathlib2 project instead.

py-pathlib2

Homepage:
Spack package:
Versions:
2.3.6, 2.3.3, 2.3.2, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-scandir
Run Dependencies:
python, py-six, py-scandir
Description:
Backport of pathlib from python 3.4

py-pathos

Homepage:
Spack package:
Versions:
0.2.8, 0.2.3, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-multiprocess, py-pox, py-ppft, py-dill
Run Dependencies:
python, py-multiprocess, py-pox, py-ppft, py-dill
Description:
Parallel graph management and execution in heterogeneous computing

py-pathspec

Homepage:
Spack package:
Versions:
0.9.0, 0.8.1, 0.3.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
pathspec extends the test loading and running features of unittest, making it easier to write, find and run tests.

py-pathtools

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Path utilities for Python

py-patool

Homepage:
Spack package:
Versions:
1.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
portable archive file manager

py-patsy

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1, 0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six
Run Dependencies:
python, py-numpy, py-scipy, py-six
Description:
A Python package for describing statistical models and for building design matrices.

py-pauvre

Homepage:
Spack package:
Versions:
0.1.86
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-biopython, py-pandas, pil
Run Dependencies:
python, py-matplotlib, py-biopython, py-pandas, pil
Description:
pauvre: plotting package designed for nanopore and PacBio long reads

py-pbr

Homepage:
Spack package:
Versions:
5.7.0, 5.4.3, 5.2.1, 3.1.1, 2.0.0, 1.10.0, 1.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PBR is a library that injects some useful and sensible default behaviors into your setuptools run.

py-peachpy

Homepage:
Spack package:
Versions:
master
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-opcodes, py-six, py-enum34
Run Dependencies:
python, py-six, py-enum34
Description:
Portable Efficient Assembly Codegen in Higher-level Python.

py-pem

Homepage:
Spack package:
Versions:
20.1.0, 19.3.0, 19.2.0, 19.1.0, 18.2.0, 18.1.0, 17.1.0, 16.1.0, 16.0.0, 15.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
pem is an MIT-licensed Python module for parsing and splitting of PEM files, i.e. Base64 encoded DER keys and certificates.

py-pep517

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-toml, py-tomli, py-importlib-metadata, py-zipp
Run Dependencies:
python, py-toml, py-tomli, py-importlib-metadata, py-zipp
Description:
Wrappers to build Python packages using PEP 517 hooks.

py-pep8

Homepage:
Spack package:
Versions:
1.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Python style guide checker (deprecated, use py-pycodestyle instead).

py-pep8-naming

Homepage:
Spack package:
Versions:
0.10.0, 0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flake8-polyfill
Run Dependencies:
python, py-flake8-polyfill
Description:
Check PEP-8 naming conventions, plugin for flake8.

py-performance

Homepage:
Spack package:
Versions:
0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pyperf
Run Dependencies:
python, py-setuptools, py-six, py-pyperf
Description:
The performance project is intended to be an authoritative source of benchmarks for all Python implementations. The focus is on real-world benchmarks, rather than synthetic benchmarks, using whole applications when possible.

py-periodictable

Homepage:
Spack package:
Versions:
1.5.0, 1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pyparsing
Run Dependencies:
python, py-numpy, py-pyparsing
Description:
nose extends the test loading and running features of unittest, making it easier to write, find and run tests.

py-petastorm

Homepage:
Spack package:
Versions:
0.9.8, 0.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dill, py-diskcache, py-future, py-futures, py-numpy, py-packaging, py-pandas, py-psutil, py-pyspark, py-pyzmq, py-pyarrow, py-six
Run Dependencies:
python, py-dill, py-diskcache, py-future, py-futures, py-numpy, py-packaging, py-pandas, py-psutil, py-pyspark, py-pyzmq, py-pyarrow, py-six
Description:
Petastorm is a library enabling the use of Parquet storage from Tensorflow, Pytorch, and other Python-based ML training frameworks.

py-petsc4py

Homepage:
Spack package:
Versions:
main, 3.17.1, 3.17.0, 3.16.6, 3.16.5, 3.16.4, 3.16.3, 3.16.2, 3.16.1, 3.16.0, 3.15.5, 3.15.4, 3.15.3, 3.15.2, 3.15.1, 3.15.0, 3.14.1, 3.14.0, 3.13.0, 3.12.0, 3.11.0, 3.10.1, 3.10.0, 3.9.1, 3.9.0, 3.8.1, 3.8.0, 3.7.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-numpy, py-mpi4py, petsc
Link Dependencies:
petsc
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
This package provides Python bindings for the PETSc package.

py-pexpect

Homepage:
Spack package:
Versions:
4.8.0, 4.7.0, 4.6.0, 4.2.1, 3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ptyprocess
Run Dependencies:
python, py-ptyprocess
Description:
Pexpect allows easy control of interactive console applications.

py-phonenumbers

Homepage:
Spack package:
Versions:
8.12.16, 8.12.15, 8.12.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python version of Google's common library for parsing, formatting and validating international phone numbers.

py-phonopy

Homepage:
Spack package:
Versions:
1.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-pyyaml
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-pyyaml
Description:
Phonopy is an open source package for phonon calculations at harmonic and quasi-harmonic levels.

py-pickle5

Homepage:
Spack package:
Versions:
0.0.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This package backports all features and APIs added in the pickle module in Python 3.8.3, including the PEP 574 additions. It should work with Python 3.5, 3.6 and 3.7.

py-pickleshare

Homepage:
Spack package:
Versions:
0.7.5, 0.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pathlib2
Run Dependencies:
python, py-pathlib2
Description:
Tiny 'shelve'-like database with concurrency support

py-picmistandard

Homepage:
Spack package:
Versions:
develop, 0.0.19, 0.0.18, 0.0.16, 0.0.14
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-setuptools
Run Dependencies:
python, py-numpy, py-scipy
Description:
Standard input format for Particle-In-Cell codes

py-picrust

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
python, py-pip, py-wheel, py-cogent, py-biom-format, py-setuptools, py-future, py-numpy
Run Dependencies:
python, py-cogent, py-biom-format, py-future, py-numpy
Description:
bioinformatics software package designed to predict metagenome functional content from marker gene surveys and full genomes.

py-picrust2

Homepage:
Spack package:
Versions:
2.3.0-b, 2.2.0-b, 2.1.4-b
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-h5py, py-joblib, py-biom-format
Run Dependencies:
python, py-numpy, py-h5py, py-joblib, py-biom-format
Description:
PICRUSt2 is a software for predicting functional abundances based only on marker gene sequences.

py-pid

Homepage:
Spack package:
Versions:
3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pidfile featuring stale detection and file-locking, can also be used as context-manager or decorator.

py-pika

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.0, 0.13.1, 0.13.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pika is a RabbitMQ (AMQP 0-9-1) client library for Python.

py-pil

Homepage:
Spack package:
Versions:
1.1.7
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
The Python Imaging Library (PIL) adds image processing capabilities to your Python interpreter. This library supports many file formats, and provides powerful image processing and graphics capabilities.

py-pillow

Homepage:
Spack package:
Versions:
9.0.0, 8.4.0, 8.0.0, 7.2.0, 7.0.0, 6.2.2, 6.2.1, 6.2.0, 6.0.0, 5.4.1, 5.1.0, 3.2.0, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, zlib, jpeg, libtiff, freetype, lcms, libwebp, openjpeg, libimagequant, libxcb
Link Dependencies:
zlib, jpeg, libtiff, freetype, lcms, libwebp, openjpeg, libimagequant, libxcb
Run Dependencies:
python
Description:
Pillow is a fork of the Python Imaging Library (PIL). It adds image processing capabilities to your Python interpreter. This library supports many file formats, and provides powerful image processing and graphics capabilities.

py-pillow-simd

Homepage:
Spack package:
Versions:
9.0.0.post1, 7.0.0.post3, 6.2.2.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, zlib, jpeg, libtiff, freetype, lcms, libwebp, openjpeg, libimagequant, libxcb
Link Dependencies:
zlib, jpeg, libtiff, freetype, lcms, libwebp, openjpeg, libimagequant, libxcb
Run Dependencies:
python
Description:
Pillow-SIMD is a SIMD-enabled fork of Pillow. It is usually 4-6x faster than the original Pillow in image processing benchmarks.

py-pint

Homepage:
Spack package:
Versions:
0.17, 0.11, 0.10.1, 0.10, 0.9, 0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-packaging, py-importlib-metadata, py-importlib-resources
Run Dependencies:
python, py-setuptools, py-packaging, py-importlib-metadata, py-importlib-resources
Description:
Pint is a Python package to define, operate and manipulate physical quantities: the product of a numerical value and a unit of measurement. It allows arithmetic operations between them and conversions from and to different units.

py-pip

Homepage:
Spack package:
Versions:
21.3.1, 21.1.2, 20.2, 19.3, 19.1.1, 19.0.3, 18.1, 10.0.1, 9.0.1
Build Dependencies:
python
Run Dependencies:
python
Description:
The PyPA recommended tool for installing Python packages.

py-pipits

Homepage:
Spack package:
Versions:
2.4, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pispino, py-biom-format, py-numpy, py-pandas, py-progressbar2, py-requests, java
Run Dependencies:
python, py-pispino, vsearch, fastx-toolkit, hmmer, itsx, py-biom-format, rdptools, py-numpy, py-pandas, py-progressbar2, py-requests, seqkit, java, rdp-classifier
Description:
Automated pipeline for analyses of fungal ITS from the Illumina

py-pispino

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, vsearch, fastx-toolkit
Description:
PISPINO (PIpits SPIN-Off tools).

py-pkgconfig

Homepage:
Spack package:
Versions:
1.5.5, 1.5.1, 1.4.0, 1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-setuptools, pkgconfig
Run Dependencies:
python, pkgconfig
Description:
Interface Python with pkg-config.

py-pkginfo

Homepage:
Spack package:
Versions:
1.7.1, 1.5.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Query metadatdata from sdists / bdists / installed packages.

py-plac

Homepage:
Spack package:
Versions:
1.3.5, 1.3.3, 1.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-argparse
Run Dependencies:
python, py-argparse
Description:
The smartest command line arguments parser in the world.

py-planar

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
2D planar geometry library for Python.

py-planet

Homepage:
Spack package:
Versions:
1.4.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click, py-requests, py-requests-futures
Run Dependencies:
python, py-click, py-requests, py-requests-futures
Description:
Python client library and CLI for Planet's public API

py-platformdirs

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
A small Python module for determining appropriate platform-specific dirs, e.g. a "user data dir"

py-plotly

Homepage:
Spack package:
Versions:
5.2.2, 2.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pytz, py-decorator, py-nbformat, py-requests, py-tenacity
Run Dependencies:
python, py-six, py-pytz, py-decorator, py-nbformat, py-requests, py-tenacity
Description:
An interactive, browser-based graphing library for Python

py-plotnine

Homepage:
Spack package:
Versions:
0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-descartes, py-matplotlib, py-mizani, py-numpy, py-pandas, py-patsy, py-scipy, py-setuptools, py-statsmodels
Run Dependencies:
python, py-descartes, py-matplotlib, py-mizani, py-numpy, py-pandas, py-patsy, py-scipy, py-statsmodels
Description:
plotnine is an implementation of a grammar of graphics in Python, it is based on ggplot2. The grammar allows users to compose plots by explicitly mapping data to the visual objects that make up the plot.

py-pluggy

Homepage:
Spack package:
Versions:
1.0.0, 0.13.0, 0.12.0, 0.9.0, 0.8.1, 0.7.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-importlib-metadata
Run Dependencies:
python, py-importlib-metadata
Description:
Plugin and hook calling mechanisms for python.

py-ply

Homepage:
Spack package:
Versions:
3.11, 3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python Lex & Yacc.

py-pmw

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pmw is a toolkit for building high-level compound widgets, or megawidgets, constructed using other widgets as component parts.

py-pmw-patched

Homepage:
Spack package:
Versions:
02-10-2020
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Schrodinger's Fork of Python megawidgets with essential patches applied. Pmw is a toolkit for building high-level compound widgets, or megawidgets, constructed using other widgets as component parts.

py-pockets

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
A collection of helpful Python tools.

py-poetry-core

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7
Build Dependencies:
python, py-pip, py-wheel, py-importlib-metadata, py-pathlib2, py-typing, py-enum34, py-functools32
Run Dependencies:
python, py-importlib-metadata, py-pathlib2, py-typing, py-enum34, py-functools32
Description:
Poetry PEP 517 Build Backend.

py-pomegranate

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-joblib, py-networkx, py-scipy, py-pyyaml
Run Dependencies:
python, py-numpy, py-joblib, py-networkx, py-scipy, py-pyyaml
Description:
Fast, flexible and easy to use probabilistic modelling in Python.

py-pooch

Homepage:
Spack package:
Versions:
1.5.2, 1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-requests, py-packaging, py-appdirs
Run Dependencies:
python, py-requests, py-packaging, py-appdirs
Description:
Pooch manages your Python library's sample data files: it automatically downloads and stores them in a local directory, with support for versioning and corruption checks.

py-portalocker

Homepage:
Spack package:
Versions:
1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Portalocker is a library to provide an easy API to file locking.

py-portend

Homepage:
Spack package:
Versions:
2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-tempora
Run Dependencies:
python, py-tempora
Description:
TCP port monitoring and discovery

py-poster

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Streaming HTTP uploads and multipart/form-data encoding.

py-pot

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-cython
Run Dependencies:
python, py-numpy, py-scipy, py-cython
Description:
This open source Python library provide several solvers for optimization problems related to Optimal Transport for signal, image processing and machine learning.

py-pox

Homepage:
Spack package:
Versions:
0.3.0, 0.2.5, 0.2.3, 0.2.2, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Utilities for filesystem exploration and automated builds.

py-poyo

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A lightweight YAML Parser for Python

py-ppft

Homepage:
Spack package:
Versions:
1.6.6.4, 1.6.4.9, 1.6.4.7.1, 1.6.4.6, 1.6.4.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-dill
Run Dependencies:
python, py-six, py-dill
Description:
Distributed and parallel python

py-pre-commit

Homepage:
Spack package:
Versions:
2.17.0, 1.20.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-aspy-yaml, py-cfgv, py-identify, py-nodeenv, py-pyyaml, py-six, py-toml, py-virtualenv, py-futures, py-importlib-metadata, py-importlib-resources
Run Dependencies:
python, py-aspy-yaml, py-cfgv, py-identify, py-nodeenv, py-pyyaml, py-six, py-toml, py-virtualenv, py-futures, py-importlib-metadata, py-importlib-resources
Description:
A framework for managing and maintaining multi-language pre-commit hooks.

py-preshed

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cymem, py-murmurhash
Run Dependencies:
python, py-cymem, py-murmurhash
Description:
preshed: Cython Hash Table for Pre-Hashed Keys.

py-pretrainedmodels

Homepage:
Spack package:
Versions:
0.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch, py-torchvision, py-munch, py-tqdm
Run Dependencies:
python, py-torch, py-torchvision, py-munch, py-tqdm
Description:
Pretrained models for Pytorch.

py-prettytable

Homepage:
Spack package:
Versions:
3.2.0, 2.4.0, 0.7.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-wcwidth, py-importlib-metadata, py-setuptools-scm
Run Dependencies:
python, py-wcwidth, py-importlib-metadata
Description:
PrettyTable is a simple Python library designed to make it quick and easy to represent tabular data in visually appealing ASCII tables.

py-priority

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Priority is a pure-Python implementation of the priority logic for HTTP/2, set out in RFC 7540 Section 5.3 (Stream Priority). This logic allows for clients to express a preference for how the server allocates its (limited) resources to the many outstanding HTTP requests that may be running over a single HTTP/2 connection.

py-profilehooks

Homepage:
Spack package:
Versions:
1.11.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python decorators for profiling/tracing/timing a single function

py-proglog

Homepage:
Spack package:
Versions:
0.1.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tqdm
Run Dependencies:
python, py-tqdm
Description:
Proglog is a progress logging system for Python. It allows to build complex libraries while giving the user control on the management of logs, callbacks and progress bars.

py-progress

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Easy progress reporting for Python

py-progressbar2

Homepage:
Spack package:
Versions:
3.55.0, 3.50.1, 3.39.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-python-utils
Run Dependencies:
python, py-six, py-python-utils
Description:
A progress bar for Python 2 and Python 3

py-projectq

Homepage:
Spack package:
Versions:
develop, 0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-future, py-requests, py-pybind11
Run Dependencies:
python, py-numpy, py-scipy, py-future, py-requests, py-pybind11
Description:
ProjectQ is an open-source software framework for quantum computing started at ETH Zurich. It allows users to implement their quantum programs in Python using a powerful and intuitive syntax. ProjectQ can then translate these programs to any type of back-end, be it a simulator run on a classical computer of an actual quantum chip.

py-prometheus-client

Homepage:
Spack package:
Versions:
0.12.0, 0.7.1, 0.7.0, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-twisted
Run Dependencies:
python, py-twisted
Description:
Prometheus instrumentation library for Python applications.

py-promise

Homepage:
Spack package:
Versions:
2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-typing
Run Dependencies:
python, py-six, py-typing
Description:
This is a implementation of Promises in Python. It is a super set of Promises/A+ designed to have readable, performant code and to provide just the extensions that are absolutely necessary for using promises in Python.

py-prompt-toolkit

Homepage:
Spack package:
Versions:
3.0.29, 3.0.24, 3.0.17, 3.0.16, 3.0.7, 2.0.10, 2.0.9, 1.0.16, 1.0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-wcwidth
Run Dependencies:
python, py-six, py-wcwidth
Description:
Library for building powerful interactive command lines in Python

py-protobuf

Homepage:
Spack package:
Versions:
3.20.0, 3.17.3, 3.17.2, 3.17.1, 3.17.0, 3.16.0, 3.15.8, 3.15.7, 3.15.6, 3.15.5, 3.15.1, 3.12.2, 3.11.2, 3.11.1, 3.11.0, 3.10.0, 3.9.2, 3.9.1, 3.7.1, 3.6.1, 3.6.0, 3.5.2, 3.5.1, 3.4.0, 3.3.0, 3.1.0, 3.0.0b2, 3.0.0a3, 3.0.0, 2.6.1, 2.5.0, 2.4.1, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-ordereddict, py-unittest2, protobuf
Link Dependencies:
protobuf
Run Dependencies:
python, py-setuptools, py-six, py-ordereddict, py-unittest2
Description:
Protocol buffers are Google's language-neutral, platform-neutral, extensible mechanism for serializing structured data - think XML, but smaller, faster, and simpler. You define how you want your data to be structured once, then you can use special generated source code to easily write and read your structured data to and from a variety of data streams and using a variety of languages.

py-prov

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lxml, py-networkx, py-python-dateutil, py-rdflib, py-pydot, graphviz
Run Dependencies:
python, py-lxml, py-networkx, py-python-dateutil, py-rdflib, py-pydot, graphviz
Description:
A Python library for W3C Provenance Data Model (PROV). A library for W3C Provenance Data Model supporting PROV-JSON, PROV-XML and PROV-O (RDF)

py-prwlock

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Native process-shared rwlock support for Python

py-pspamm

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy
Link Dependencies:
py-numpy, py-scipy
Run Dependencies:
python
Description:
Code Generator for Small Sparse Matrix Multiplication

py-psutil

Homepage:
Spack package:
Versions:
5.8.0, 5.7.2, 5.6.3, 5.6.2, 5.5.1, 5.4.5, 5.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
psutil is a cross-platform library for retrieving information on running processes and system utilization (CPU, memory, disks, network) in Python.

py-psyclone

Homepage:
Spack package:
Versions:
develop, 1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing, py-fparser
Run Dependencies:
python, py-pyparsing, py-fparser
Test Dependencies:
py-numpy, py-nose, py-pytest
Description:
Code generation for the PSyKAl framework from the GungHo project, as used by the LFRic model at the UK Met Office.

py-psycopg2

Homepage:
Spack package:
Versions:
2.9.1, 2.8.6, 2.7.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, postgresql
Link Dependencies:
python, postgresql
Run Dependencies:
python, postgresql
Description:
Python interface to PostgreSQL databases

py-ptyprocess

Homepage:
Spack package:
Versions:
0.7.0, 0.6.0, 0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-flit-core
Run Dependencies:
python
Description:
Run a subprocess in a pseudo terminal

py-pudb

Homepage:
Spack package:
Versions:
2017.1.1, 2016.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-urwid, py-pygments
Run Dependencies:
python, py-setuptools, py-urwid, py-pygments
Description:
Full-screen console debugger for Python

py-pulp

Homepage:
Spack package:
Versions:
2.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PuLP is an LP modeler written in Python. PuLP can generate MPS or LP files and call GLPK, COIN-OR CLP/CBC, CPLEX, GUROBI, MOSEK, XPRESS, CHOCO, MIPCL, SCIP to solve linear problems.

py-pure-eval

Homepage:
Spack package:
Versions:
master, 0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Safely evaluate AST nodes without side effects.

py-pure-sasl

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-kerberos
Run Dependencies:
python, py-kerberos
Description:
This package provides a reasonably high-level SASL client written in pure Python. New mechanisms may be integrated easily, but by default, support for PLAIN, ANONYMOUS, EXTERNAL, CRAM-MD5, DIGEST-MD5, and GSSAPI are provided.

py-py

Homepage:
Spack package:
Versions:
1.11.0, 1.9.0, 1.8.2, 1.8.0, 1.5.4, 1.5.3, 1.4.33, 1.4.31
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Library with cross-python path, ini-parsing, io, code, log facilities

py-py-cpuinfo

Homepage:
Spack package:
Versions:
8.0.0, 6.0.0, 0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Get CPU info with pure Python 2 & 3

py-py-spy

Homepage:
Spack package:
Versions:
0.3.8, 0.3.3
Build Dependencies:
rust, unwind
Link Dependencies:
unwind
Description:
A Sampling Profiler for Python.

py-py2bit

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A package for accessing 2bit files using lib2bit.

py-py2cairo

Homepage:
Spack package:
Versions:
1.10.0
Build Dependencies:
python, cairo, pixman, pkgconfig
Link Dependencies:
cairo, pixman
Run Dependencies:
python
Test Dependencies:
py-pytest
Description:
Pycairo is a set of Python bindings for the cairo graphics library.

py-py2neo

Homepage:
Spack package:
Versions:
4.3.0, 2.0.8, 2.0.7, 2.0.6, 2.0.5, 2.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-certifi, py-click, py-colorama, py-neobolt, py-neotime, py-prompt-toolkit, py-pygments, py-pytz, py-urllib3
Run Dependencies:
python, py-certifi, py-click, py-colorama, py-neobolt, py-neotime, py-prompt-toolkit, py-pygments, py-pytz, py-urllib3
Description:
Py2neo is a client library and toolkit for working with Neo4j from within Python applications and from the command line.

py-py4j

Homepage:
Spack package:
Versions:
0.10.9, 0.10.7, 0.10.6, 0.10.4, 0.10.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Enables Python programs to dynamically access arbitrary Java objects.

py-py6s

Homepage:
Spack package:
Versions:
1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pysolar, py-matplotlib, py-scipy
Run Dependencies:
python, py-pysolar, py-matplotlib, py-scipy
Description:
A wrapper for the 6S Radiative Transfer Model to make it easy to run simulations with a variety of input parameters, and to produce outputs in an easily processable form.

py-pyaestro

Homepage:
Spack package:
Versions:
main, 0.0.1a2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-coloredlogs, py-psutil
Run Dependencies:
python, py-coloredlogs, py-psutil
Description:
A collection of data classes, data structures, and other utility classes that are aimed for use in workflow

py-pyamg

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
PyAMG is a library of Algebraic Multigrid (AMG) solvers with a convenient Python interface.

py-pyaml

Homepage:
Spack package:
Versions:
21.8.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml
Run Dependencies:
python, py-pyyaml
Description:
PyYAML-based python module to produce pretty and readable YAML- serialized data.

py-pyani

Homepage:
Spack package:
Versions:
0.2.7, 0.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-matplotlib, py-seaborn, py-biopython, py-pandas, py-scipy
Link Dependencies:
python
Run Dependencies:
python, py-matplotlib, py-seaborn, py-biopython, py-pandas, py-scipy, blast-plus, mummer
Description:
pyani is a Python3 module that provides support for calculating average nucleotide identity (ANI) and related measures for whole genome comparisons, and rendering relevant graphical summary output. Where available, it takes advantage of multicore systems, and can integrate with SGE/OGE-type job schedulers for the sequence comparisons.

py-pyarrow

Homepage:
Spack package:
Versions:
8.0.0, 7.0.0, 4.0.1, 3.0.0, 0.17.1, 0.15.1, 0.12.1, 0.11.0, 0.9.0
Build Dependencies:
cuda, python, py-pip, py-wheel, cmake, pkgconfig, py-setuptools, py-setuptools-scm, py-cython, py-numpy, py-six, py-futures, py-enum34, arrow
Link Dependencies:
cuda, arrow
Run Dependencies:
python, py-numpy, py-six, py-futures, py-enum34
Description:
A cross-language development platform for in-memory data. This package contains the Python bindings.

py-pyasn1

Homepage:
Spack package:
Versions:
0.4.8, 0.4.6, 0.4.5, 0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pure-Python implementation of ASN.1 types and DER/BER/CER codecs (X.208).

py-pyasn1-modules

Homepage:
Spack package:
Versions:
0.2.8, 0.2.6, 0.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyasn1
Run Dependencies:
python, py-pyasn1
Description:
A collection of ASN.1 modules expressed in form of pyasn1 classes. Includes protocols PDUs definition (SNMP, LDAP etc.) and various data structures (X.509, PKCS etc.).

py-pyautogui

Homepage:
Spack package:
Versions:
0.9.52
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pymsgbox, py-pytweening, py-pyscreeze, py-pygetwindow, py-mouseinfo, py-python3-xlib, py-python-xlib
Run Dependencies:
python, py-pymsgbox, py-pytweening, py-pyscreeze, py-pygetwindow, py-mouseinfo, py-python3-xlib, py-python-xlib
Description:
PyAutoGUI lets your Python scripts control the mouse and keyboard to automate interactions with other applications.

py-pybedtools

Homepage:
Spack package:
Versions:
0.8.0, 0.7.10, 0.7.9, 0.7.8, 0.7.7, 0.7.6, 0.7.5, 0.7.4, 0.7.3, 0.7.2, 0.6.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-pandas, py-pysam, py-six
Run Dependencies:
python, bedtools2, py-numpy, py-pandas, py-pysam, py-six
Description:
Python wrapper -- and more -- for Aaron Quinlan's BEDTools

py-pybids

Homepage:
Spack package:
Versions:
0.15.1, 0.14.0, 0.13.2, 0.13.1, 0.9.5, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-nibabel, py-pandas, py-formulaic, py-sqlalchemy, py-bids-validator, py-num2words, py-click, py-patsy
Run Dependencies:
python, py-numpy, py-scipy, py-nibabel, py-pandas, py-formulaic, py-sqlalchemy, py-bids-validator, py-num2words, py-click, py-patsy
Description:
bids: interface with datasets conforming to BIDS

py-pybigwig

Homepage:
Spack package:
Versions:
0.3.12, 0.3.4
Build Dependencies:
python, py-pip, py-wheel, curl, py-setuptools, py-numpy
Link Dependencies:
curl
Run Dependencies:
python, curl, py-numpy
Description:
A package for accessing bigWig files using libBigWig.

py-pybind11

Homepage:
Spack package:
Versions:
master, 2.9.1, 2.9.0, 2.8.1, 2.8.0, 2.7.1, 2.7.0, 2.6.2, 2.6.1, 2.5.0, 2.4.3, 2.3.0, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.1, 2.1.0
Build Dependencies:
python, py-pip, py-wheel, cmake, ninja, py-setuptools
Run Dependencies:
python
Test Dependencies:
py-pytest
Description:
pybind11 -- Seamless operability between C++11 and Python. pybind11 is a lightweight header-only library that exposes C++ types in Python and vice versa, mainly to create Python bindings of existing C++ code. Its goals and syntax are similar to the excellent Boost.Python library by David Abrahams: to minimize boilerplate code in traditional extension modules by inferring type information using compile-time introspection.

py-pybind11-stubgen

Homepage:
Spack package:
Versions:
0.8.7, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Generates stubs for pybind11-wrapped python modules

py-pybobyqa

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-pandas, py-numpy
Run Dependencies:
python, py-scipy, py-pandas, py-numpy
Description:
Py-BOBYQA is a flexible package for solving bound-constrained general objective minimization, without requiring derivatives of the objective.

py-pybrain

Homepage:
Spack package:
Versions:
0.3.3.post
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy
Run Dependencies:
python, py-scipy
Description:
PyBrain is the Swiss army knife for neural networking.

py-pybtex

Homepage:
Spack package:
Versions:
0.24.0, 0.21
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-latexcodec, py-pyyaml, py-counter, py-six
Run Dependencies:
python, py-latexcodec, py-pyyaml, py-counter, py-six
Description:
Pybtex is a BibTeX-compatible bibliography processor written in Python.

py-pybtex-docutils

Homepage:
Spack package:
Versions:
1.0.0, 0.2.2, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils, py-pybtex, py-six
Run Dependencies:
python, py-docutils, py-pybtex, py-six
Description:
A docutils backend for pybtex.

py-pycairo

Homepage:
Spack package:
Versions:
1.20.0, 1.18.1, 1.17.1
Build Dependencies:
python, py-pip, py-wheel, cairo, pkgconfig, py-setuptools
Link Dependencies:
cairo
Run Dependencies:
python
Description:
Pycairo is a set of Python bindings for the cairo graphics library.

py-pycares

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi
Run Dependencies:
python, py-cffi
Description:
pycares is a Python module which provides an interface to c-ares. c-ares is a C library that performs DNS requests and name resolutions asynchronously.

py-pycbc

Homepage:
Spack package:
Versions:
1.14.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-mako, py-cython, py-decorator, py-scipy, py-matplotlib, pil, py-h5py, py-jinja2, py-astropy, py-mpld3, py-lscsoft-glue, py-emcee, py-requests, py-beautifulsoup4, py-six, py-ligo-segments, py-weave
Run Dependencies:
python, py-numpy, py-mako, py-decorator, py-scipy, py-matplotlib, pil, py-h5py, py-jinja2, py-astropy, py-mpld3, py-lscsoft-glue, py-emcee, py-requests, py-beautifulsoup4, py-six, py-ligo-segments, py-weave
Description:
PyCBC is a software package used to explore astrophysical sources of gravitational waves. It contains algorithms to analyze gravitational- wave data from the LIGO and Virgo detectors, detect coalescing compact binaries, and measure the astrophysical parameters of detected sources. PyCBC was used in the first direct detection of gravitational waves and is used in the flagship analysis of LIGO and Virgo data.

py-pychecker

Homepage:
Spack package:
Versions:
0.8.19
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python source code checking tool.

py-pycifrw

Homepage:
Spack package:
Versions:
4.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python library for interacting with Crystallographic Information Framework (CIF) files.

py-pycmd

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pip, py-wheel, py-py, py-setuptools
Run Dependencies:
python, py-py
Description:
pycmd is a collection of command line tools for helping with Python development.

py-pycocotools

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-matplotlib
Link Dependencies:
python, py-numpy
Run Dependencies:
python, py-numpy, py-matplotlib
Description:
Official APIs for the MS-COCO dataset.

py-pycodestyle

Homepage:
Spack package:
Versions:
2.8.0, 2.7.0, 2.6.0, 2.5.0, 2.3.1, 2.3.0, 2.2.0, 2.1.0, 2.0.0, 1.7.0, 1.6.2, 1.6.1, 1.6, 1.5.7, 1.5.6, 1.5.5, 1.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
pycodestyle is a tool to check your Python code against some of the style conventions in PEP 8. Note: formerly called pep8.

py-pycompadre

Homepage:
Spack package:
Versions:
master
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-cython, trilinos
Link Dependencies:
python, py-pip, trilinos
Run Dependencies:
python, py-pip
Description:
The Compadre Toolkit provides a performance portable solution for the parallel evaluation of computationally dense kernels. The toolkit specifically targets the Generalized Moving Least Squares (GMLS) approach, which requires the inversion of small dense matrices. The result is a set of weights that provide the information needed for remap or entries that constitute the rows of some globally sparse matrix.

py-pycosat

Homepage:
Spack package:
Versions:
0.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PicoSAT is a popular SAT solver written by Armin Biere in pure C. This package provides efficient Python bindings to picosat on the C level, i.e. when importing pycosat, the picosat solver becomes part of the Python process itself. For ease of deployment, the picosat source (namely picosat.c and picosat.h) is included in this project. These files have been extracted from the picosat source (picosat-965.tar.gz).

py-pycparser

Homepage:
Spack package:
Versions:
2.20, 2.19, 2.18, 2.17, 2.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A complete parser of the C language, written in pure python.

py-pycrypto

Homepage:
Spack package:
Versions:
2.6.1
Build Dependencies:
python, py-pip, py-wheel, gmp
Link Dependencies:
gmp
Run Dependencies:
python
Description:
The Python Cryptography Toolkit

py-pycuda

Homepage:
Spack package:
Versions:
2021.1, 2020.1, 2019.1.2, 2016.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, cuda, boost, py-numpy, py-pytools, py-decorator, py-appdirs, py-mako
Link Dependencies:
cuda, boost
Run Dependencies:
python, py-numpy, py-pytools, py-six, py-decorator, py-appdirs, py-mako
Description:
PyCUDA gives you easy, Pythonic access to Nvidia's CUDA parallel computation API

py-pycurl

Homepage:
Spack package:
Versions:
7.44.1, 7.43.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, curl
Link Dependencies:
curl
Run Dependencies:
python
Description:
PycURL is a Python interface to libcurl. PycURL can be used to fetch objects identified by a URL from a Python program.

py-pydantic

Homepage:
Spack package:
Versions:
1.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses, py-typing-extensions
Run Dependencies:
python, py-dataclasses, py-typing-extensions
Description:
Data validation and settings management using Python type hinting.

py-pydap

Homepage:
Spack package:
Versions:
3.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-webob, py-jinja2, py-docopt, py-six, py-beautifulsoup4, py-singledispatch
Run Dependencies:
python, py-numpy, py-webob, py-jinja2, py-docopt, py-six, py-beautifulsoup4, py-singledispatch
Description:
An implementation of the Data Access Protocol.

py-pydatalog

Homepage:
Spack package:
Versions:
0.17.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
pyDatalog adds logic programming to Python.

py-pydeprecate

Homepage:
Spack package:
Versions:
0.3.1, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple tooling for marking deprecated functions or classes and re- routing to the new successors' instance.

py-pydeps

Homepage:
Spack package:
Versions:
1.9.0, 1.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-enum34, py-stdlib-list, py-pyyaml
Run Dependencies:
python, py-setuptools, py-enum34, py-stdlib-list, py-pyyaml
Description:
Python module dependency visualization.

py-pydicom

Homepage:
Spack package:
Versions:
2.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, py-numpy
Description:
Pure python package for DICOM medical file reading and writing pydicom is a pure Python package for working with DICOM files. It lets you read, modify and write DICOM data in an easy "pythonic" way.

py-pydispatcher

Homepage:
Spack package:
Versions:
2.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Multi-producer-multi-consumer signal dispatching mechanism.

py-pydmd

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-future, texlive, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-future
Test Dependencies:
py-nose
Description:
PyDMD is a Python package that uses Dynamic Mode Decomposition for a data-driven model simplification based on spatiotemporal coherent structures.

py-pydocstyle

Homepage:
Spack package:
Versions:
6.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-snowballstemmer, py-toml
Run Dependencies:
python, py-setuptools, py-snowballstemmer, py-toml
Description:
Python docstring style checker.

py-pydoe

Homepage:
Spack package:
Versions:
0.3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
The pyDOE package is designed to help the scientist, engineer, statistician, etc., to construct appropriate experimental designs

py-pydoe2

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Run Dependencies:
python, py-numpy, py-scipy
Description:
pyDOE2 is a fork of the pyDOE package that is designed to help the scientist, engineer, statistician, etc., to construct appropriate experimental designs.

py-pydot

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.2.3, 1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing, graphviz
Run Dependencies:
python, py-pyparsing, graphviz
Description:
Python interface to Graphviz's Dot language

py-pydot2

Homepage:
Spack package:
Versions:
1.0.33
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing
Run Dependencies:
python, py-pyparsing
Description:
Python interface to Graphviz's Dot

py-pydotplus

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
python, py-pyparsing
Description:
Python interface to Graphviz's Dot language

py-pydv

Homepage:
Spack package:
Versions:
2.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-functools-lru-cache, py-cycler, py-python-dateutil, py-matplotlib, py-pyside, py-scipy
Run Dependencies:
python, py-backports-functools-lru-cache, py-cycler, py-python-dateutil, py-matplotlib, py-pyside, py-scipy
Description:
PDV is a 1D graphics and data analysis tool, heavily based on the ULTRA plotting tool

py-pyeda

Homepage:
Spack package:
Versions:
0.28.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PyEDA is a Python library for electronic design automation.

py-pyelftools

Homepage:
Spack package:
Versions:
0.26, 0.23
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure-Python library for parsing and analyzing ELF files and DWARF debugging information

py-pyem

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Project-level Python virtual environment management tool. PyEM manages multiple virtual environments local to projects. It provides shortcuts to create, remove, switch between, and run commands against virtual environments created against various Python interpreters.

py-pyepsg

Homepage:
Spack package:
Versions:
0.4.0, 0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests
Run Dependencies:
python, py-requests
Description:
Provides simple access to https://epsg.io/.

py-pyface

Homepage:
Spack package:
Versions:
7.3.0, 6.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata, py-importlib-resources, py-traits, py-wxpython, py-numpy, py-pyqt4, py-pygments, py-pyqt5, py-pyside, py-pyside2, py-shiboken2
Run Dependencies:
python, py-importlib-metadata, py-importlib-resources, py-traits, py-wxpython, py-numpy, py-pyqt4, py-pygments, py-pyqt5, py-pyside, py-pyside2, py-shiboken2
Description:
The pyface project contains a toolkit-independent GUI abstraction layer, which is used to support the "visualization" features of the Traits package. Thus, you can write code in terms of the Traits API (views, items, editors, etc.), and let pyface and your selected toolkit and back-end take care of the details of displaying them.

py-pyfaidx

Homepage:
Spack package:
Versions:
0.5.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-ordereddict, py-argparse
Run Dependencies:
python, py-setuptools, py-six, py-ordereddict, py-argparse
Description:
pyfaidx: efficient pythonic random access to fasta subsequences

py-pyfasta

Homepage:
Spack package:
Versions:
0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Link Dependencies:
python, py-setuptools, py-numpy
Run Dependencies:
python
Description:
Pyfasta: fast, memory-efficient, pythonic (and command-line) access to fasta sequence files

py-pyfftw

Homepage:
Spack package:
Versions:
0.12.0, 0.11.1, 0.10.4
Build Dependencies:
python, py-pip, py-wheel, fftw, py-setuptools, py-cython, py-numpy
Link Dependencies:
fftw
Run Dependencies:
python, py-numpy
Description:
A pythonic wrapper around FFTW, the FFT library, presenting a unified interface for all the supported transforms.

py-pyfiglet

Homepage:
Spack package:
Versions:
0.8.post1, 0.8.post0, 0.7.6, 0.7.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
pyfiglet is a full port of FIGlet (http://www.figlet.org/) into purepython. It takes ASCII text and renders it in ASCII art font.

py-pyfits

Homepage:
Spack package:
Versions:
3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
The PyFITS module is a Python library providing access to FITS(Flexible Image Transport System) files.

py-pyflakes

Homepage:
Spack package:
Versions:
2.4.0, 2.3.0, 2.2.0, 2.1.1, 2.1.0, 1.6.0, 1.5.0, 1.4.0, 1.3.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.0, 0.9.2, 0.9.1, 0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
A simple program which checks Python source files for errors.

py-pyfr

Homepage:
Spack package:
Versions:
develop, master, 1.14.0, 1.13.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-gimmik, py-h5py, py-mako, py-mpi4py, py-numpy, py-platformdirs, py-pytools, py-scipy
Run Dependencies:
python, py-gimmik, py-h5py, py-mako, py-mpi4py, py-numpy, py-platformdirs, py-pytools, py-scipy, scotch, cuda, rocblas, libxsmm
Description:
PyFR is an open-source Python based framework for solving advection- diffusion type problems on streaming architectures using the Flux Reconstruction approach of Huynh.

py-pygdal

Homepage:
Spack package:
Versions:
3.3.2.10, 3.3.0.10, 3.0.4.6, 3.0.1.5, 2.4.2.5, 2.4.1.6, 2.4.0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, gdal
Link Dependencies:
gdal
Run Dependencies:
python, py-numpy, gdal
Description:
Virtualenv and setuptools friendly version of standard GDAL python bindings. This package is for you if you had problems installing GDAL in your virtualenv. You can install GDAL into your virtualenv using this package but you still need to install GDAL library and its header files on your system.

py-pygdbmi

Homepage:
Spack package:
Versions:
0.9.0.3, 0.8.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Parse gdb machine interface output with Python

py-pygelf

Homepage:
Spack package:
Versions:
0.4.0, 0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python logging handlers with GELF (Graylog Extended Log Format) support.

py-pygeos

Homepage:
Spack package:
Versions:
0.10, 0.9, 0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, geos
Link Dependencies:
python, py-numpy, geos
Run Dependencies:
python, py-numpy
Description:
PyGEOS is a C/Python library with vectorized geometry functions. The geometry operations are done in the open-source geometry library GEOS. PyGEOS wraps these operations in NumPy ufuncs providing a performance improvement when operating on arrays of geometries.

py-pygetwindow

Homepage:
Spack package:
Versions:
0.0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyrect
Run Dependencies:
python, py-pyrect
Description:
A simple, cross-platform module for obtaining GUI information on and controlling application's windows.

py-pygit2

Homepage:
Spack package:
Versions:
1.6.0, 1.4.0, 1.3.0, 0.28.2, 0.24.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, libgit2, py-six, py-cffi, py-cached-property
Link Dependencies:
python, libgit2
Run Dependencies:
python, py-six, py-cffi, py-cached-property
Description:
Pygit2 is a set of Python bindings to the libgit2 shared library, libgit2 implements the core of Git.

py-pygithub

Homepage:
Spack package:
Versions:
1.55
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-deprecated, py-pyjwt, py-pynacl, py-requests
Run Dependencies:
python, py-deprecated, py-pyjwt, py-pynacl, py-requests
Description:
Use the full Github API v3

py-pyglet

Homepage:
Spack package:
Versions:
1.4.2, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future
Run Dependencies:
python, py-future
Description:
pyglet is a cross-platform windowing and multimedia library for Python for developing games and other visually rich applications.

py-pygments

Homepage:
Spack package:
Versions:
2.10.0, 2.6.1, 2.4.2, 2.3.1, 2.2.0, 2.1.3, 2.0.2, 2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Pygments is a syntax highlighting package written in Python.

py-pygments-pytest

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pygments lexer for pytest output.

py-pygobject

Homepage:
Spack package:
Versions:
3.38.0, 3.28.3, 2.28.6, 2.28.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, pkgconfig, libffi, glib, py-pycairo, py-py2cairo, gobject-introspection, gtkplus
Link Dependencies:
libffi, glib, gobject-introspection, gtkplus
Run Dependencies:
python, py-pycairo, py-py2cairo
Description:
bindings for the GLib, and GObject, to be used in Python.

py-pygps

Homepage:
Spack package:
Versions:
1.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-future
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-future
Description:
pyGPs is a Python library for Gaussian Process (GP) Regression and Classification.

py-pygpu

Homepage:
Spack package:
Versions:
0.7.6, 0.7.5, 0.7.2, 0.7.1, 0.7.0, 0.6.9, 0.6.2, 0.6.1, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, libgpuarray, py-setuptools, py-cython, py-numpy, py-mako, py-six
Link Dependencies:
python, libgpuarray, py-numpy
Run Dependencies:
python, py-setuptools, py-cython, py-numpy, py-mako, py-six
Description:
Python packge for the libgpuarray C library.

py-pygraphviz

Homepage:
Spack package:
Versions:
1.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, graphviz
Link Dependencies:
graphviz
Run Dependencies:
python
Description:
Python interface to Graphviz

py-pygresql

Homepage:
Spack package:
Versions:
5.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, postgresql
Run Dependencies:
python, postgresql
Description:
PyGreSQL is an open-source Python module that interfaces to a PostgreSQL database

py-pygtk

Homepage:
Spack package:
Versions:
2.24.0
Build Dependencies:
gnuconfig, python, pkgconfig, libffi, atk, cairo, glib, gtkplus, py-pygobject, py-py2cairo
Link Dependencies:
libffi, atk, cairo, glib, gtkplus
Run Dependencies:
python, py-pygobject, py-py2cairo
Description:
bindings for the Gtk2 in Python. use pygobject for Gtk3.

py-pygtrie

Homepage:
Spack package:
Versions:
2.4.2, 2.4.0, 2.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure Python implementation of a trie data structure.

py-pyh5md

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-h5py, py-numpy
Run Dependencies:
python, py-h5py, py-numpy
Description:
Read and write H5MD files.

py-pyheadtail

Homepage:
Spack package:
Versions:
1.14.1, 1.13.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-h5py
Run Dependencies:
python, py-numpy, py-scipy, py-h5py
Description:
CERN PyHEADTAIL numerical n-body simulation code for simulating macro- particle beam dynamics with collective effects.

py-pyinstrument

Homepage:
Spack package:
Versions:
4.0.3, 3.1.3, 3.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, npm, py-pyinstrument-cext
Run Dependencies:
python, py-setuptools, py-pyinstrument-cext
Description:
Call stack profiler for Python. Shows you why your code is slow!

py-pyinstrument-cext

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A CPython extension supporting pyinstrument.

py-pyjnius

Homepage:
Spack package:
Versions:
1.3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-cython, java
Run Dependencies:
python, py-setuptools, py-six, py-cython, java
Description:
Pyjnius is a Python library for accessing Java classes.

py-pyjwt

Homepage:
Spack package:
Versions:
2.1.0, 1.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cryptography
Run Dependencies:
python, py-cryptography
Description:
JSON Web Token implementation in Python

py-pyke

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pyke introduces a form of Logic Programming (inspired by Prolog) to the Python community by providing a knowledge-based inference engine (expert system) written in 100% Python.

py-pykml

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lxml
Run Dependencies:
python, py-lxml
Description:
pyKML is a Python package for parsing and authoring KML documents. It is based on the lxml.objectify API which provides Pythonic access to XML documents.

py-pykokkos-base

Homepage:
Spack package:
Versions:
main, 0.0.5, 0.0.4, 0.0.3
Build Dependencies:
python, py-pip, py-wheel, cmake, py-pybind11, kokkos
Run Dependencies:
python, kokkos
Description:
Minimal set of bindings for Kokkos interoperability with Python (initialize, finalize, View, DynRankView, Kokkos-tools)

py-pykwalify

Homepage:
Spack package:
Versions:
1.7.0, 1.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docopt, py-ruamel-yaml, py-python-dateutil, py-pyyaml
Run Dependencies:
python, py-docopt, py-ruamel-yaml, py-python-dateutil, py-pyyaml
Description:
Python lib/cli for JSON/YAML schema validation

py-pylev

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure Python Levenshtein implementation that's not freaking GPL'd.

py-pyliblzma

Homepage:
Spack package:
Versions:
0.5.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, lzma
Link Dependencies:
lzma
Run Dependencies:
python
Description:
Python bindings for liblzma

py-pylikwid

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, likwid
Link Dependencies:
likwid
Run Dependencies:
python
Description:
Python interface to the LIKWID tools library with calls for system topology, process/thread affinity, hardware performance monitoring and the manipulation of system features like frequencies and prefetchers.

py-pylops

Homepage:
Spack package:
Versions:
master, 1.12.0, 1.11.1
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-setuptools, py-llvmlite, py-numba, py-pyfftw, py-pywavelets, py-scikit-fmm, py-spgl1
Run Dependencies:
python, py-numpy, py-scipy, py-llvmlite, py-numba, py-pyfftw, py-pywavelets, py-scikit-fmm, py-spgl1
Description:
Many useful operators, however, do not lend themselves to an explicit matrix representation when used to solve large-scale problems. PyLops operators, on the other hand, still represent a matrix and can be treated in a similar way, but do not rely on the explicit creation of a dense (or sparse) matrix itself. Conversely, the forward and adjoint operators are represented by small pieces of codes that mimic the effect of the matrix on a vector or another matrix.

py-pymatgen

Homepage:
Spack package:
Versions:
2021.3.9, 4.7.2, 4.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-six, py-requests, py-pyyaml, py-monty, py-scipy, py-pydispatcher, py-tabulate, py-spglib, py-matplotlib, py-palettable, py-pandas, py-plotly, py-ruamel-yaml, py-sympy, py-uncertainties, py-networkx
Run Dependencies:
python, py-numpy, py-six, py-requests, py-pyyaml, py-monty, py-scipy, py-pydispatcher, py-tabulate, py-spglib, py-matplotlib, py-palettable, py-pandas, py-plotly, py-ruamel-yaml, py-sympy, py-uncertainties, py-networkx
Description:
Python Materials Genomics is a robust materials analysis code that defines core object representations for structures and molecules with support for many electronic structure codes. It is currently the core analysis code powering the Materials Project.

py-pymc3

Homepage:
Spack package:
Versions:
3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-arviz, py-theano, py-numpy, py-scipy, py-pandas, py-patsy, py-tqdm, py-h5py
Run Dependencies:
python, py-arviz, py-theano, py-numpy, py-scipy, py-pandas, py-patsy, py-tqdm, py-h5py
Description:
PyMC3 is a Python package for Bayesian statistical modeling and Probabilistic Machine Learning focusing on advanced Markov chain Monte Carlo (MCMC) and variational inference (VI) algorithms. Its flexibility and extensibility make it applicable to a large suite of problems.

py-pymeeus

Homepage:
Spack package:
Versions:
0.3.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library of astronomical algorithms in Python.

py-pyminifier

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pyminifier is a Python code minifier, obfuscator, and compressor.

py-pymol

Homepage:
Spack package:
Versions:
2.5.0, 2.4.0, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, gl, glew, libpng, freetype, glm, libmmtf-cpp, msgpack-c, netcdf-cxx4, libxml2, py-pmw-patched, py-pyqt5, py-pmw, py-numpy, py-msgpack
Link Dependencies:
python, gl, glew, libpng, freetype, glm, libmmtf-cpp, msgpack-c, netcdf-cxx4, libxml2, py-numpy
Run Dependencies:
python, libpng, libmmtf-cpp, msgpack-c, py-pmw-patched, py-pyqt5, py-pmw, py-numpy, py-msgpack
Description:
PyMOL is a Python-enhanced molecular graphics tool. It excels at 3D visualization of proteins, small molecules, density, surfaces, and trajectories. It also includes molecular editing, ray tracing, and movies. Open Source PyMOL is free to everyone!

py-pymongo

Homepage:
Spack package:
Versions:
3.12.1, 3.9.0, 3.6.0, 3.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The PyMongo distribution contains tools for interacting with MongoDB database from Python. The bson package is an implementation of the BSON format for Python. The pymongo package is a native Python driver for MongoDB. The gridfs package is a gridfs implementation on top of pymongo. PyMongo supports MongoDB 2.6, 3.0, 3.2, 3.4, 3.6, 4.0 and 4.2.

py-pymoo

Homepage:
Spack package:
Versions:
0.5.0, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-autograd, py-setuptools
Run Dependencies:
python, py-autograd
Description:
Multi-Objective Optimization in Python

py-pymorph

Homepage:
Spack package:
Versions:
0.96
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pymorph is a collection of pure python implementations of many image morphology functions.

py-pympler

Homepage:
Spack package:
Versions:
0.4.3, 0.4.2, 0.4.1, 0.4, 0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Development tool to measure, monitor and analyze the memory behavior of Python objects in a running Python application.

py-pymsgbox

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A simple, cross-platform, pure Python module for JavaScript-like message boxes.

py-pymumps

Homepage:
Spack package:
Versions:
0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-mpi4py
Link Dependencies:
mumps
Run Dependencies:
python, py-mpi4py
Description:
Python bindings for MUMPS, a parallel sparse direct solver

py-pymysql

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cryptography
Run Dependencies:
python, py-cryptography
Description:
Pure-Python MySQL client library

py-pynacl

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-cffi
Run Dependencies:
python, py-six, py-cffi
Description:
Python binding to the Networking and Cryptography (NaCl) library.

py-pynio

Homepage:
Spack package:
Versions:
1.5.4
Build Dependencies:
python, py-pip, py-wheel, libpng, jpeg, zlib, netcdf-c, hdf5, gdal, py-setuptools, py-numpy
Link Dependencies:
libpng, jpeg, zlib, netcdf-c, hdf5, gdal
Run Dependencies:
python, py-numpy
Description:
PyNIO ("pie-nee-oh") is a Python module that allows read and/or write access to a variety of scientific data formats popular in climate and weather

py-pynisher

Homepage:
Spack package:
Versions:
0.6.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-psutil
Run Dependencies:
python, py-psutil
Description:
A small Python library to limit the resources used by a function by executing it inside a subprocess.

py-pynn

Homepage:
Spack package:
Versions:
0.9.1, 0.8.3, 0.8.1, 0.8beta, 0.7.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jinja2, py-docutils, py-numpy, py-quantities, py-lazyarray, py-neo
Run Dependencies:
python, py-jinja2, py-docutils, py-numpy, py-quantities, py-lazyarray, py-neo
Description:
A Python package for simulator-independent specification of neuronal network models

py-pynvim

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msgpack
Run Dependencies:
python, py-msgpack
Description:
Neovim python client

py-pynvml

Homepage:
Spack package:
Versions:
8.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Provides a Python interface to GPU management and monitoring functions. This is a wrapper around the NVML library. For information about the NVML library, see the NVML developer page https://developer.nvidia.com/nvidia-management-library-nvml

py-pyodbc

Homepage:
Spack package:
Versions:
4.0.26
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, unixodbc
Link Dependencies:
python, unixodbc
Run Dependencies:
python
Description:
A Python DB API 2 module for ODBC. This project provides an up-to-date, convenient interface to ODBC using native data types like datetime and decimal.

py-pyomo

Homepage:
Spack package:
Versions:
5.6.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-appdirs, py-pyutilib, py-ply, py-six
Run Dependencies:
python, py-appdirs, py-pyutilib, py-ply, py-six
Description:
Pyomo is a Python-based open-source software package that supports a diverse set of optimization capabilities for formulating and analyzing optimization models.

py-pyopencl

Homepage:
Spack package:
Versions:
2020.2.2
Build Dependencies:
python, py-pip, py-wheel, ocl-icd, opencl, py-appdirs, py-decorator, py-mako, py-numpy, py-pybind11, py-pytools, py-setuptools, py-six
Link Dependencies:
ocl-icd, opencl
Run Dependencies:
python, ocl-icd, opencl, py-appdirs, py-decorator, py-mako, py-numpy, py-pytools, py-six
Description:
Python wrapper for OpenCL.

py-pyopenssl

Homepage:
Spack package:
Versions:
19.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cryptography, py-six
Run Dependencies:
python, py-cryptography, py-six
Description:
High-level wrapper around a subset of the OpenSSL library. Note: The Python Cryptographic Authority strongly suggests the use of pyca/cryptography where possible. If you are using pyOpenSSL for anything other than making a TLS connection you should move to cryptography and drop your pyOpenSSL dependency.

py-pypar

Homepage:
Spack package:
Versions:
2.1.5_108
Build Dependencies:
python, py-pip, py-wheel, mpi, py-setuptools, py-numpy
Link Dependencies:
mpi
Run Dependencies:
python, py-numpy
Description:
Pypar is an efficient but easy-to-use module that allows programs written in Python to run in parallel on multiple processors and communicate using MPI.

py-pyparsing

Homepage:
Spack package:
Versions:
3.0.6, 2.4.7, 2.4.2, 2.4.0, 2.3.1, 2.2.0, 2.1.10, 2.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Python Parsing Module.

py-pypeflow

Homepage:
Spack package:
Versions:
2017-05-04
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-networkx
Run Dependencies:
python, py-networkx
Description:
pypeFLOW is light weight and reusable make / flow data process library written in Python.

py-pypeg2

Homepage:
Spack package:
Versions:
2.15.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lxml
Run Dependencies:
python, py-lxml
Description:
A PEG Parser-Interpreter in Python

py-pyperclip

Homepage:
Spack package:
Versions:
1.8.2, 1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, xclip
Description:
A cross-platform clipboard module for Python.

py-pyperf

Homepage:
Spack package:
Versions:
1.6.1, 1.6.0, 1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
The Python perf module is a toolkit to write, run and analyze benchmarks.

py-pypinyin

Homepage:
Spack package:
Versions:
0.46.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-argparse, py-enum34, py-typing
Run Dependencies:
python, py-argparse, py-enum34, py-typing
Description:
Chinese Pinyin conversion module/tool.

py-pyprecice

Homepage:
Spack package:
Versions:
develop, 2.3.0.1, 2.2.1.1, 2.2.0.2, 2.2.0.1, 2.1.1.2, 2.1.1.1, 2.1.0.1, 2.0.2.1, 2.0.1.1, 2.0.0.2, 2.0.0.1
Build Dependencies:
python, py-pip, py-wheel, precice, py-setuptools, py-numpy, py-mpi4py, py-cython, py-packaging
Link Dependencies:
python, precice, py-numpy
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
This package provides python language bindings for the C++ library preCICE.

py-pyprof2html

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jinja2
Run Dependencies:
python, py-jinja2
Description:
Python cProfile and hotshot profile's data to HTML Converter

py-pyproj

Homepage:
Spack package:
Versions:
3.1.0, 3.0.1, 3.0.0, 2.6.1, 2.6.0, 2.2.0, 2.1.3, 1.9.6, 1.9.5.1
Build Dependencies:
python, py-pip, py-wheel, proj, py-setuptools, py-certifi, py-aenum, py-cython
Link Dependencies:
python, proj, py-cython
Run Dependencies:
python, py-certifi, py-aenum
Description:
Python interface to PROJ (cartographic projections and coordinate transformations library).

py-pypulse

Homepage:
Spack package:
Versions:
0.1.1, 0.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-astropy
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-astropy
Description:
Pulse is a package used to handle PSRFITS files and perform subsequent analyses on pulse profiles.

py-pyqi

Homepage:
Spack package:
Versions:
0.3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
pyqi (canonically pronounced pie chee) is a Python framework designed to support wrapping general commands in multiple types of interfaces, including at the command line, HTML, and API levels.

py-pyqt-builder

Homepage:
Spack package:
Versions:
1.12.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging, py-sip
Run Dependencies:
python, py-packaging, py-sip
Description:
The PEP 517 compliant PyQt build system.

py-pyqt4

Homepage:
Spack package:
Versions:
4.12.3, 4.11.3
Build Dependencies:
python, qt, py-sip
Link Dependencies:
qt, py-sip
Run Dependencies:
python
Description:
PyQt is a set of Python v2 and v3 bindings for The Qt Company's Qt application framework and runs on all platforms supported by Qt including Windows, OS X, Linux, iOS and Android. PyQt4 supports Qt v4 and will build against Qt v5.

py-pyqt5

Homepage:
Spack package:
Versions:
5.13.1, 5.13.0, 5.12.3
Build Dependencies:
python, qt, py-sip, py-enum34
Link Dependencies:
qt, py-sip
Run Dependencies:
python, py-sip, py-enum34
Description:
PyQt is a set of Python v2 and v3 bindings for The Qt Company's Qt application framework and runs on all platforms supported by Qt including Windows, OS X, Linux, iOS and Android. PyQt5 supports Qt v5.

py-pyqt5-sip

Homepage:
Spack package:
Versions:
12.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The sip module support for PyQt5.

py-pyquaternion

Homepage:
Spack package:
Versions:
0.9.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, py-numpy
Description:
Python morphology manipulation toolkit

py-pyrad

Homepage:
Spack package:
Versions:
3.0.66
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, vsearch, muscle
Link Dependencies:
vsearch, muscle
Run Dependencies:
python, py-numpy, py-scipy
Description:
RADseq for phylogenetics & introgression analyses

py-pyrect

Homepage:
Spack package:
Versions:
0.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
PyRect is a simple module with a Rect class for Pygame-like rectangular areas.

py-pyrfr

Homepage:
Spack package:
Versions:
0.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, swig
Link Dependencies:
swig
Run Dependencies:
python
Description:
This package serves as the python interface to RFR, an extensible C++ librarry for random forests.

py-pyro4

Homepage:
Spack package:
Versions:
4.81, 4.80, 4.79, 4.78, 4.77, 4.76, 4.75, 4.74, 4.73, 4.72, 4.71, 4.70, 4.63, 4.62, 4.61, 4.60, 4.59, 4.58, 4.57, 4.56, 4.55, 4.54, 4.53, 4.52, 4.51, 4.50, 4.49, 4.48, 4.47, 4.46, 4.45, 4.43, 4.42, 4.41, 4.40, 4.39, 4.38, 4.37, 4.36, 4.35, 4.34, 4.33, 4.32, 4.31, 4.30, 4.29, 4.28, 4.27, 4.26, 4.25, 4.24, 4.23, 4.22, 4.21, 4.20, 4.18, 4.17, 4.16, 4.15, 4.14, 4.13, 4.12, 4.11, 4.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-serpent, py-selectors34
Run Dependencies:
python, py-serpent, py-selectors34
Description:
distributed object middleware for Python (RPC)

py-pyrosar

Homepage:
Spack package:
Versions:
0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-progressbar2, py-pathos, py-numpy, py-scoop, py-spatialist, py-pyyaml, gdal
Link Dependencies:
gdal
Run Dependencies:
python, py-progressbar2, py-pathos, py-numpy, py-scoop, py-spatialist, py-pyyaml, gdal
Description:
A framework for large-scale SAR satellite data processing

py-pyrsistent

Homepage:
Spack package:
Versions:
0.18.0, 0.16.0, 0.15.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Link Dependencies:
python
Run Dependencies:
python, py-six
Description:
Pyrsistent is a number of persistent collections (by some referred to as functional data structures). Persistent in the sense that they are immutable.

py-pysam

Homepage:
Spack package:
Versions:
0.18.0, 0.15.3, 0.15.2, 0.15.1, 0.14.1, 0.7.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, curl, bcftools, htslib, samtools
Link Dependencies:
curl, bcftools, htslib, samtools
Run Dependencies:
python
Description:
A python module for reading, manipulating and writing genomic data sets.

py-pyscaf

Homepage:
Spack package:
Versions:
0.12a4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-fastaindex
Run Dependencies:
python, py-fastaindex
Description:
pyScaf orders contigs from genome assemblies utilising several types of information

py-pyscf

Homepage:
Spack package:
Versions:
1.7.5, 1.7.3
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-numpy, py-scipy, py-h5py, blas, libcint, libxc, xcfun
Link Dependencies:
blas, libcint, libxc, xcfun
Run Dependencies:
python, py-numpy, py-scipy, py-h5py
Description:
PySCF is a collection of electronic structure programs powered by Python.

py-pyscipopt

Homepage:
Spack package:
Versions:
3.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, scipoptsuite
Link Dependencies:
scipoptsuite
Run Dependencies:
python
Description:
Python interface for the SCIP Optimization Suite

py-pyscreeze

Homepage:
Spack package:
Versions:
0.1.27
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, pil
Run Dependencies:
python, pil, scrot
Description:
PyScreeze can take screenshots, save them to files, and locate images within the screen. This is useful if you have a small image of, say, a button that needs to be clicked and want to locate it on the screen.

py-pyserial

Homepage:
Spack package:
Versions:
3.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python Serial Port Extension

py-pyshp

Homepage:
Spack package:
Versions:
2.1.0, 1.2.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The Python Shapefile Library (pyshp) reads and writes ESRI Shapefiles in pure Python.

py-pyside

Homepage:
Spack package:
Versions:
1.2.4, 1.2.2
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-sphinx, qt, libxml2, libxslt
Link Dependencies:
qt, libxml2, libxslt
Run Dependencies:
python, py-sphinx
Description:
Python bindings for Qt.

py-pyside2

Homepage:
Spack package:
Versions:
develop, 5.15.2.1, 5.14.2.1, 5.13.2, 5.13.1, 5.13.0, 5.12.5
Build Dependencies:
python, py-pip, py-wheel, cmake, llvm, py-setuptools, py-packaging, qt, graphviz, libxml2, libxslt, py-sphinx
Link Dependencies:
qt
Run Dependencies:
python
Description:
Python bindings for Qt.

py-pysimdjson

Homepage:
Spack package:
Versions:
4.0.3, 3.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pybind11
Link Dependencies:
py-pybind11
Run Dependencies:
python
Description:
Python bindings for the simdjson project, a SIMD-accelerated JSON parser. If SIMD instructions are unavailable a fallback parser is used, making pysimdjson safe to use anywhere.

py-pysmartdl

Homepage:
Spack package:
Versions:
1.3.2, 1.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Smart Download Manager for Python.

py-pysocks

Homepage:
Spack package:
Versions:
1.7.1, 1.6.6, 1.5.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Python SOCKS client module.

py-pysolar

Homepage:
Spack package:
Versions:
0.8, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pytz
Run Dependencies:
python, py-numpy, py-pytz
Description:
Pysolar is a collection of Python libraries for simulating the irradiation of any point on earth by the sun. It includes code for extremely precise ephemeris calculations, and more.

py-pyspark

Homepage:
Spack package:
Versions:
3.0.1, 2.4.4, 2.3.2, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-py4j
Run Dependencies:
python, py-py4j
Description:
Python bindings for Apache Spark

py-pyspellchecker

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pure python spell checker based on work by Peter Norvig

py-pysqlite

Homepage:
Spack package:
Versions:
2.8.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, sqlite
Run Dependencies:
python, sqlite
Description:
Python DB-API module for SQLite 3.

py-pysqlite3

Homepage:
Spack package:
Versions:
0.4.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, sqlite
Link Dependencies:
sqlite
Run Dependencies:
python, sqlite
Description:
DB-API 2.0 interface for Sqlite 3.x

py-pystac

Homepage:
Spack package:
Versions:
1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.1, 0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-typing-extensions
Run Dependencies:
python, py-python-dateutil, py-typing-extensions
Description:
Python library for working with Spatiotemporal Asset Catalog (STAC).

py-pystan

Homepage:
Spack package:
Versions:
3.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-poetry-core, py-aiohttp, py-httpstan, py-pysimdjson, py-numpy, py-clikit
Run Dependencies:
python, py-setuptools, py-aiohttp, py-httpstan, py-pysimdjson, py-numpy, py-clikit
Description:
PyStan is a Python interface to Stan, a package for Bayesian inference.

py-pysurfer

Homepage:
Spack package:
Versions:
0.11.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-nibabel, py-mayavi, py-imageio
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-nibabel, py-mayavi, py-imageio
Description:
Cortical neuroimaging visualization in Python.

py-pytailf

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple python tail -f wrapper

py-pytaridx

Homepage:
Spack package:
Versions:
master, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module/library for creating and maintaining a rapidly searchable index for a tar-file. This allows "direct access" of members (files) in the tar archive.

py-pytecplot

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flatbuffers, py-protobuf, py-pyzmq, py-six, py-numpy, py-ipython, py-pillow, tecplot
Run Dependencies:
python, py-flatbuffers, py-protobuf, py-pyzmq, py-six, py-numpy, py-ipython, py-pillow, tecplot
Description:
The pytecplot library is a high level API that connects your Python script to the power of the Tecplot 360 visualization engine. It offers line plotting, 2D and 3D surface plots in a variety of formats, and 3D volumetric visualization. Familiarity with Tecplot 360 and the Tecplot 360 macro language is helpful, but not required.

py-pytest

Homepage:
Spack package:
Versions:
6.2.5, 6.2.4, 6.2.1, 6.1.1, 5.3.4, 5.2.1, 5.1.1, 4.6.9, 4.6.5, 4.6.2, 4.4.0, 4.3.0, 3.7.2, 3.7.1, 3.5.1, 3.0.7, 3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-attrs, py-iniconfig, py-packaging, py-pluggy, py-py, py-toml, py-atomicwrites, py-colorama, py-importlib-metadata, py-six, py-more-itertools, py-funcsigs, py-pathlib2, py-wcwidth
Run Dependencies:
python, py-setuptools, py-attrs, py-iniconfig, py-packaging, py-pluggy, py-py, py-toml, py-atomicwrites, py-colorama, py-importlib-metadata, py-six, py-more-itertools, py-funcsigs, py-pathlib2, py-wcwidth
Description:
pytest: simple powerful testing with Python.

py-pytest-arraydiff

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-six, py-pytest
Run Dependencies:
python, py-numpy, py-six, py-pytest
Description:
pytest plugin to help with comparing array output from tests

py-pytest-benchmark

Homepage:
Spack package:
Versions:
3.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-py-cpuinfo
Run Dependencies:
python, py-pytest, py-py-cpuinfo
Description:
A pytest fixture for benchmarking code.

py-pytest-cache

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-execnet
Run Dependencies:
python, py-pytest, py-execnet
Description:
pytest plugin to provide cross-test run caching functionality to plugins and test runs.

py-pytest-cov

Homepage:
Spack package:
Versions:
3.0.0, 2.8.1, 2.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-coverage
Run Dependencies:
python, py-pytest, py-coverage
Description:
Pytest plugin for measuring coverage.

py-pytest-cpp

Homepage:
Spack package:
Versions:
1.5.0, 1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest, py-colorama
Run Dependencies:
python, py-pytest, py-colorama
Description:
Use pytest runner to discover and execute C++ tests.

py-pytest-doctestplus

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest
Run Dependencies:
python, py-setuptools, py-pytest
Description:
Pytest plugin with advanced doctest features.

py-pytest-flake8

Homepage:
Spack package:
Versions:
0.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flake8, py-pytest
Run Dependencies:
python, py-flake8, py-pytest
Description:
pytest plugin to check FLAKE8 requirements.

py-pytest-flakes

Homepage:
Spack package:
Versions:
4.0.3, 4.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-pyflakes
Run Dependencies:
python, py-pytest, py-pyflakes
Description:
py.test plugin for efficiently checking python source with pyflakes.

py-pytest-forked

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest
Run Dependencies:
python, py-pytest
Description:
Run tests in isolated forked subprocesses.

py-pytest-html

Homepage:
Spack package:
Versions:
3.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest, py-pytest-metadata
Run Dependencies:
python, py-pytest, py-pytest-metadata
Description:
pytest-html is a plugin for pytest that generates a HTML report for test results

py-pytest-httpbin

Homepage:
Spack package:
Versions:
1.0.0, 0.2.3, 0.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-decorator, py-httpbin, py-six
Run Dependencies:
python, py-flask, py-decorator, py-httpbin, py-six
Description:
Easily test your HTTP library against a local copy of httpbin

py-pytest-isort

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-isort
Run Dependencies:
python, py-pytest, py-isort
Description:
py.test plugin to check import ordering using isort

py-pytest-metadata

Homepage:
Spack package:
Versions:
1.11.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest
Run Dependencies:
python, py-pytest
Description:
pytest plugin for test session metadata

py-pytest-mock

Homepage:
Spack package:
Versions:
1.11.1, 1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest
Run Dependencies:
python, py-pytest
Description:
Thin-wrapper around the mock package for easier use with py.test

py-pytest-mypy

Homepage:
Spack package:
Versions:
0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-mypy
Run Dependencies:
python, py-pytest, py-mypy
Description:
Mypy static type checker plugin for Pytest.

py-pytest-openfiles

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest, py-psutil
Run Dependencies:
python, py-pytest, py-psutil
Description:
A plugin for the pytest framework that allows developers to detect whether any file handles or other file-like objects were inadvertently left open at the end of a unit test

py-pytest-parallel

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-tblib
Run Dependencies:
python, py-pytest, py-tblib
Description:
A pytest plugin for parallel and concurrent testing.

py-pytest-pep8

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-cache, py-pytest, py-pep8
Run Dependencies:
python, py-pytest-cache, py-pytest, py-pep8
Description:
pytest plugin for efficiently checking PEP8 compliance

py-pytest-qt

Homepage:
Spack package:
Versions:
3.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pytest
Run Dependencies:
python, py-pytest
Description:
A pytest plugin that allows programmers to write tests for PySide, PySide2 and PyQt applications.

py-pytest-random-order

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest
Run Dependencies:
python, py-pytest
Test Dependencies:
py-pytest
Description:
Randomise the order in which pytest tests are run.

py-pytest-runner

Homepage:
Spack package:
Versions:
5.3.1, 5.1, 2.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python, py-setuptools
Description:
Invoke py.test as distutils command with dependency resolution.

py-pytest-timeout

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest
Run Dependencies:
python, py-pytest
Description:
A plugin which will terminate tests after a certain timeout, assuming the test session isn't being debugged.

py-pytest-xdist

Homepage:
Spack package:
Versions:
1.30.0, 1.29.0, 1.27.0, 1.24.0, 1.17.0, 1.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-execnet, py-pytest, py-pytest-forked, py-six
Run Dependencies:
python, py-execnet, py-pytest, py-pytest-forked, py-six
Description:
py.test xdist plugin for distributed testing and loop-on-failing mode

py-python-box

Homepage:
Spack package:
Versions:
5.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ruamel-yaml, py-toml, py-msgpack
Link Dependencies:
py-ruamel-yaml, py-toml, py-msgpack
Run Dependencies:
python
Description:
Advanced Python dictionaries with dot notation access Box will automatically make otherwise inaccessible keys safe to access as an attribute. You can always pass conversion_box=False to Box to disable that behavior. Also, all new dict and lists added to a Box or BoxList object are converted automatically.

py-python-certifi-win32

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-wrapt, py-wincertstore, py-certifi
Run Dependencies:
python, py-wrapt, py-wincertstore, py-certifi
Description:
This package patches certifi at runtime to also include certificates from the windows certificate store.

py-python-constraint

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Constraint Solving Problem resolver for Python

py-python-crfsuite

Homepage:
Spack package:
Versions:
0.9.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Run Dependencies:
python
Description:
python-crfsuite is a python binding to CRFsuite.

py-python-daemon

Homepage:
Spack package:
Versions:
2.3.0, 2.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lockfile, py-docutils, py-twine
Run Dependencies:
python, py-setuptools, py-lockfile
Description:
Library to implement a well-behaved Unix daemon process. This library implements the well-behaved daemon specification of PEP Standard daemon process. A well-behaved Unix daemon process is tricky to get right, but the required steps are much the same for every daemon program. A DaemonContext instance holds the behaviour and configured process environment for the program; use the instance as a context manager to enter a daemon state.

py-python-dateutil

Homepage:
Spack package:
Versions:
2.8.2, 2.8.1, 2.8.0, 2.7.5, 2.5.2, 2.4.2, 2.4.0, 2.2, 1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six
Run Dependencies:
python, py-six
Description:
Extensions to the standard Python datetime module.

py-python-docs-theme

Homepage:
Spack package:
Versions:
2020.1, 2018.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
py-setuptools
Run Dependencies:
python
Description:
This is the theme for the Python documentation.

py-python-dotenv

Homepage:
Spack package:
Versions:
0.19.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click
Run Dependencies:
python, py-click
Description:
Read key-value pairs from a .env file and set them as environment variables

py-python-editor

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
python-editor is a library that provides the editor module for programmatically interfacing with your system's EDITOR variable.

py-python-engineio

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Engine.IO is the implementation of transport-based cross-browser/cross- device bi-directional communication layer for Socket.IO.

py-python-fmask

Homepage:
Spack package:
Versions:
0.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-rios, py-numpy, py-scipy, gdal
Run Dependencies:
python, py-rios, py-numpy, py-scipy, gdal
Description:
A set of command line utilities and Python modules that implement the FMASK algorithm for Landsat and Sentinel-2

py-python-fsutil

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-requests, py-setuptools
Run Dependencies:
python, py-requests
Description:
file-system utilities for lazy devs.

py-python-gitlab

Homepage:
Spack package:
Versions:
2.10.1, 1.8.0, 0.19, 0.18, 0.17, 0.16
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests-toolbelt, py-requests, py-six
Run Dependencies:
python, py-requests-toolbelt, py-requests, py-six
Description:
Python wrapper for the GitLab API

py-python-igraph

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, igraph
Link Dependencies:
igraph
Run Dependencies:
python
Description:
igraph is a collection of network analysis tools with the emphasis on efficiency, portability and ease of use.

py-python-jenkins

Homepage:
Spack package:
Versions:
1.5.0, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr
Run Dependencies:
python, py-pbr, py-six, py-multi-key-dict, py-requests
Description:
Python bindings for the remote Jenkins API

py-python-json-logger

Homepage:
Spack package:
Versions:
0.1.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
py-setuptools
Run Dependencies:
python
Description:
"A python library adding a json log formatter.

py-python-keystoneclient

Homepage:
Spack package:
Versions:
4.2.0
Build Dependencies:
python, py-pip, py-wheel, py-pbr, py-setuptools, py-debtcollector, py-keystoneauth1, py-oslo-config, py-oslo-i18n, py-oslo-serialization, py-oslo-utils, py-requests, py-six, py-stevedore
Run Dependencies:
python, py-debtcollector, py-keystoneauth1, py-oslo-config, py-oslo-i18n, py-oslo-serialization, py-oslo-utils, py-requests, py-six, py-stevedore
Description:
This is a client for the OpenStack Identity API, implemented by the Keystone team

py-python-ldap

Homepage:
Spack package:
Versions:
3.4.0, 3.3.1, 3.2.0, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, openldap, py-setuptools, py-pyasn1, py-pyasn1-modules
Link Dependencies:
openldap, cyrus-sasl
Run Dependencies:
python, openldap, py-pyasn1, py-pyasn1-modules
Description:
python-ldap provides an object-oriented API to access LDAP directory servers from Python programs.

py-python-levenshtein

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python extension for computing string edit distances and similarities.

py-python-logstash

Homepage:
Spack package:
Versions:
0.4.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python logging handler for Logstash.

py-python-louvain

Homepage:
Spack package:
Versions:
0.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-networkx
Run Dependencies:
python, py-numpy, py-networkx
Description:
This module implements community detection. It uses the louvain method described in Fast unfolding of communities in large networks, Vincent D Blondel, Jean-Loup Guillaume, Renaud Lambiotte, Renaud Lefebvre, Journal of Statistical Mechanics: Theory and Experiment 2008(10), P10008 (12pp)

py-python-lzo

Homepage:
Spack package:
Versions:
1.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, lzo
Link Dependencies:
lzo
Run Dependencies:
python
Description:
This module provides Python bindings for the LZO data compression library.

py-python-magic

Homepage:
Spack package:
Versions:
0.4.24, 0.4.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, file
Description:
A python wrapper for libmagic. This project is named python-magic but imports as the module name "magic".

py-python-mapnik

Homepage:
Spack package:
Versions:
3.0.16, 3.0.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, mapnik, boost, py-pycairo
Link Dependencies:
mapnik, boost
Run Dependencies:
python, mapnik, py-pycairo
Description:
Python bindings for mapnik

py-python-meep

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, mpi, meep, swig
Link Dependencies:
mpi, meep, swig
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib
Description:
Python-meep is a wrapper around libmeep. It allows the scripting of Meep-simulations with Python

py-python-memcached

Homepage:
Spack package:
Versions:
1.59
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
This software is a 100% Python interface to the memcached memory cache daemon. It is the client side software which allows storing values in one or more, possibly remote, memcached servers. Search google for memcached for more information.

py-python-oauth2

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
python-oauth2 is a framework that aims at making it easy to provide authentication via OAuth 2.0 within an application stack.

py-python-picard

Homepage:
Spack package:
Versions:
0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-matplotlib, py-scipy, py-numexpr, py-scikit-learn
Run Dependencies:
python, py-numpy, py-matplotlib, py-scipy, py-numexpr, py-scikit-learn
Description:
Preconditoned ICA for Real Data.

py-python-rapidjson

Homepage:
Spack package:
Versions:
1.5, 0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python wrapper around rapidjson.

py-python-slugify

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-text-unidecode
Run Dependencies:
python, py-text-unidecode
Description:
A Python Slugify application that handles Unicode

py-python-socketio

Homepage:
Spack package:
Versions:
1.8.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-python-engineio, py-eventlet
Run Dependencies:
python, py-six, py-python-engineio, py-eventlet
Description:
Python implementation of the Socket.IO realtime server.

py-python-subunit

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-extras, py-testtools
Run Dependencies:
python, py-extras, py-testtools
Description:
Python implementation of subunit test streaming protocol.

py-python-swiftclient

Homepage:
Spack package:
Versions:
3.12.0, 3.11.1, 3.10.0, 3.9.0, 3.8.1, 3.8.0, 3.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-futures, py-requests, py-six, py-python-keystoneclient
Run Dependencies:
python, py-futures, py-requests, py-six, py-python-keystoneclient
Description:
This is a python client for the Swift API.

py-python-utils

Homepage:
Spack package:
Versions:
2.4.0, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Python Utils is a collection of small Python functions and classes which make common patterns shorter and easier.

py-python-xlib

Homepage:
Spack package:
Versions:
0.30
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six
Run Dependencies:
python, py-six
Description:
The Python X Library is intended to be a fully functional X client library for Python programs. It is written entirely in Python, in contrast to earlier X libraries for Python (the ancient X extension and the newer plxlib) which were interfaces to the C Xlib.

py-python-xmp-toolkit

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz, exempi
Run Dependencies:
python, py-pytz, exempi
Description:
Python XMP Toolkit for working with metadata.

py-python3-xlib

Homepage:
Spack package:
Versions:
0.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
python3-xlib is python3 version of python-xlib.

py-pythonqwt

Homepage:
Spack package:
Versions:
0.5.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-sip, py-pyqt4
Run Dependencies:
python, py-numpy, py-sip, py-pyqt4
Description:
Qt plotting widgets for Python

py-pythonsollya

Homepage:
Spack package:
Versions:
0.4.0-alpha0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-six, py-setuptools, libffi, sollya, py-bigfloat, mpfi
Link Dependencies:
sollya, mpfi
Run Dependencies:
python, py-six, py-bigfloat
Description:
Python wrapper for the Sollya library

py-pythran

Homepage:
Spack package:
Versions:
0.11.0, 0.10.0, 0.9.12, 0.9.11, 0.9.10, 0.9.9, 0.9.8, 0.9.7, 0.9.6, 0.9.5, 0.9.4, 0.9.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-ply, py-networkx, py-decorator, py-gast, py-six, py-numpy, py-beniget, llvm-openmp
Run Dependencies:
python, py-ply, py-networkx, py-decorator, py-gast, py-six, py-numpy, py-beniget, llvm-openmp
Description:
Ahead of Time compiler for numeric kernels.

py-pytimeparse

Homepage:
Spack package:
Versions:
1.1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A small Python library to parse various kinds of time expressions.

py-pytoml

Homepage:
Spack package:
Versions:
0.1.21
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A parser for TOML-0.4.0. Deprecated: use py-toml instead.

py-pytools

Homepage:
Spack package:
Versions:
2021.2.9, 2019.1.1, 2016.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-decorator, py-appdirs, py-six, py-numpy, py-dataclasses
Run Dependencies:
python, py-decorator, py-appdirs, py-six, py-numpy, py-dataclasses
Description:
A collection of tools for Python

py-pytorch-gradual-warmup-lr

Homepage:
Spack package:
Versions:
0.3.2, 0.3.1, 0.3, 0.2, 0.1.1, 0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Gradually warm-up (increasing) learning rate for pytorch's optimizer.

py-pytorch-lightning

Homepage:
Spack package:
Versions:
1.6.0, 1.5.3, 1.4.1, 1.4.0, 1.3.8, 1.2.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-torch, py-tqdm, py-pyyaml, py-fsspec, py-tensorboard, py-torchmetrics, py-pydeprecate, py-packaging, py-typing-extensions, py-future, pil
Run Dependencies:
python, py-numpy, py-torch, py-tqdm, py-pyyaml, py-fsspec, py-tensorboard, py-torchmetrics, py-pydeprecate, py-packaging, py-typing-extensions, py-future, pil
Description:
PyTorch Lightning is the lightweight PyTorch wrapper for ML researchers.

py-pytorch-sphinx-theme

Homepage:
Spack package:
Versions:
master
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
PyTorch Sphinx Theme.

py-pyts

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-numba
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-joblib, py-numba
Description:
pyts is a Python package for time series classification. It aims to make time series classification easily accessible by providing preprocessing and utility tools, and implementations of state-of-the-art algorithms. Most of these algorithms transform time series, thus pyts provides several tools to perform these transformations.

py-pytweening

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A collection of tweening / easing functions implemented in Python.

py-pytz

Homepage:
Spack package:
Versions:
2021.3, 2021.1, 2020.1, 2019.3, 2019.1, 2018.4, 2016.10, 2016.6.1, 2016.3, 2015.4, 2014.10, 2014.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
World timezone definitions, modern and historical.

py-pyudev

Homepage:
Spack package:
Versions:
0.21.0, 0.15, 0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pure Python libudev binding

py-pyugrid

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-netcdf4, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-netcdf4, py-matplotlib
Description:
Work with triangular unstructured grids and the data on them.

py-pyupgrade

Homepage:
Spack package:
Versions:
2.31.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tokenize-rt
Run Dependencies:
python, py-tokenize-rt
Description:
A tool to automatically upgrade syntax for newer versions.

py-pyusb

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, libusb
Link Dependencies:
libusb
Run Dependencies:
python, py-setuptools
Description:
Easy USB access from Python.

py-pyutilib

Homepage:
Spack package:
Versions:
6.0.0, 5.6.2, 5.6.1, 5.6, 5.5.1, 5.5, 5.4.1, 5.4, 5.3.5, 5.3.4, 5.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nose, py-six
Run Dependencies:
python, py-nose, py-six
Description:
The PyUtilib project supports a collection of Python utilities, including a well-developed component architecture and extensions to the PyUnit testing framework. PyUtilib has been developed to support several Python-centric projects, especially Pyomo. PyUtilib is available under the BSD License.

py-pyvcf

Homepage:
Spack package:
Versions:
0.6.8, 0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-argparse, py-counter, py-ordereddict, py-unittest2
Run Dependencies:
python, py-argparse, py-counter, py-ordereddict, py-unittest2
Description:
A Variant Call Format reader for Python

py-pyvista

Homepage:
Spack package:
Versions:
0.32.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-imageio, pil, py-appdirs, py-scooby, py-meshio, vtk, py-dataclasses, py-typing-extensions
Run Dependencies:
python, py-numpy, py-imageio, pil, py-appdirs, py-scooby, py-meshio, vtk, py-dataclasses, py-typing-extensions
Description:
Easier Pythonic interface to VTK.

py-pyvistaqt

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyvista, py-qtpy
Run Dependencies:
python, py-pyvista, py-qtpy
Description:
PyQT support for PyVista.

py-pywavelets

Homepage:
Spack package:
Versions:
1.1.1, 0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy
Run Dependencies:
python, py-numpy
Description:
PyWavelets is a free Open Source library for wavelet transforms in Python

py-pywcs

Homepage:
Spack package:
Versions:
1.12.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-d2to1, py-stsci-distutils, py-numpy, py-pyfits, py-astropy
Run Dependencies:
python, py-numpy, py-pyfits, py-astropy
Description:
pywcs is a set of routines for handling the FITS World Coordinate System (WCS) standard.

py-pyworld

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-cython
Run Dependencies:
python, py-numpy
Description:
PyWorld wrappers WORLD, which is a free software for high-quality speech analysis, manipulation and synthesis. It can estimate fundamental frequency (F0), aperiodicity and spectral envelope and also generate the speech like input speech with only estimated parameters.i

py-pyyaml

Homepage:
Spack package:
Versions:
6.0, 5.3.1, 5.2, 5.1.2, 5.1, 3.13, 3.12, 3.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Link Dependencies:
python, libyaml
Run Dependencies:
python
Description:
PyYAML is a YAML parser and emitter for Python.

py-pyzmq

Homepage:
Spack package:
Versions:
22.3.0, 18.1.0, 18.0.1, 17.1.2, 16.0.2, 14.7.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-gevent, libzmq, py-setuptools, py-py, py-cffi
Link Dependencies:
libzmq
Run Dependencies:
python, py-gevent, py-py, py-cffi
Description:
PyZMQ: Python bindings for zeromq.

py-qiskit-aer

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, py-numpy, py-pybind11, py-qiskit-terra, py-scipy, py-scikit-build, py-cmake, mpi, nlohmann-json, spdlog, muparserx, blas
Link Dependencies:
cuda, mpi, nlohmann-json, spdlog, muparserx, blas
Run Dependencies:
python, py-numpy, py-qiskit-terra, py-scipy
Description:
Aer is a high performance simulator for quantum circuits that includes noise models

py-qiskit-terra

Homepage:
Spack package:
Versions:
0.18.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-contextvars, py-jsonschema, py-retworkx, py-numpy, py-scipy, py-ply, py-psutil, py-sympy, py-dill, py-fastjsonschema, py-python-constraint, py-python-dateutil, py-symengine, py-tweedledum
Run Dependencies:
python, py-contextvars, py-jsonschema, py-retworkx, py-numpy, py-scipy, py-ply, py-psutil, py-sympy, py-dill, py-fastjsonschema, py-python-constraint, py-python-dateutil, py-symengine, py-tweedledum
Description:
Qiskit is an open-source SDK for working with quantum computers at the level of extended quantum circuits, operators, and algorithms.

py-qmtest

Homepage:
Spack package:
Versions:
2.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A general purpose testing framework

py-qpth

Homepage:
Spack package:
Versions:
0.0.15
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-torch, py-cvxpy
Link Dependencies:
py-numpy, py-torch, py-cvxpy
Run Dependencies:
python
Description:
A fast and differentiable QP solver for PyTorch

py-qrcode

Homepage:
Spack package:
Versions:
7.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pillow, py-typing-extensions
Run Dependencies:
python, py-pillow, py-typing-extensions
Description:
Generate QR codes

py-qsymm

Homepage:
Spack package:
Versions:
1.2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-sympy, py-tinyarray, py-pytest-runner
Run Dependencies:
python, py-numpy, py-scipy, py-sympy, py-tinyarray
Description:
Qsymm is a symmetry finder and symmetric Hamiltonian generator. It automatically generates model Hamiltonians from symmetry constraints and finds the full symmetry group of your Hamiltonian.

py-qtawesome

Homepage:
Spack package:
Versions:
0.4.1, 0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-qtpy, py-six
Run Dependencies:
python, py-qtpy, py-six
Description:
FontAwesome icons in PyQt and PySide applications

py-qtpy

Homepage:
Spack package:
Versions:
1.11.2, 1.7.1, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-pyqt5, py-pyqt4, py-pyside2, py-pyside
Description:
QtPy: Abtraction layer for PyQt5/PyQt4/PySide/PySide2

py-quantities

Homepage:
Spack package:
Versions:
0.13.0, 0.12.5, 0.12.4, 0.12.3, 0.12.2, 0.12.1, 0.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Support for physical quantities with units, based on numpy

py-quast

Homepage:
Spack package:
Versions:
4.6.3, 4.6.1, 4.6.0
Build Dependencies:
python, py-pip, py-wheel, boost, perl, py-setuptools, py-matplotlib, java, perl-time-hires, gnuplot, mummer, bedtools2, bwa, glimmer
Link Dependencies:
python, boost, perl
Run Dependencies:
python, py-matplotlib, java, perl-time-hires, gnuplot, mummer, bedtools2, bwa, glimmer
Description:
Quality Assessment Tool for Genome Assemblies

py-quaternionic

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-importlib-metadata, py-numpy, py-scipy, py-numba
Run Dependencies:
python, py-importlib-metadata, py-numpy, py-scipy, py-numba
Description:
Interpret numpy arrays as quaternionic arrays with numba acceleration

py-queryablelist

Homepage:
Spack package:
Versions:
3.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module to add support for ORM-style filtering to any list of items

py-questionary

Homepage:
Spack package:
Versions:
1.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-prompt-toolkit
Run Dependencies:
python, py-prompt-toolkit
Description:
Questionary is a Python library for effortlessly building pretty command line interfaces.

py-radiant-mlhub

Homepage:
Spack package:
Versions:
0.4.1, 0.4.0, 0.3.1, 0.3.0, 0.2.2, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-pystac, py-click, py-tqdm, py-typing-extensions
Run Dependencies:
python, py-requests, py-pystac, py-click, py-tqdm, py-typing-extensions
Description:
A Python client for Radiant MLHub.

py-radical-entk

Homepage:
Spack package:
Versions:
develop, 1.11.0, 1.9.0, 1.8.0, 1.6.7
Build Dependencies:
python, py-pip, py-wheel, py-radical-utils, py-radical-pilot, py-pika, py-setuptools
Run Dependencies:
python, py-radical-utils, py-radical-pilot, py-pika
Description:
RADICAL Ensemble Toolkit is used for developing and executing large- scale ensemble-based workflows.

py-radical-gtod

Homepage:
Spack package:
Versions:
develop, 1.6.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
RADICAL-GTOD provides a single method, gtod, which returns the current time in seconds since epoch (01.01.1970) with sub-second resolution and a binary tool, radical-gtod, which is a compiled binary and does not require the invocation of the Python interpreter.

py-radical-pilot

Homepage:
Spack package:
Versions:
develop, 1.11.2, 1.10.2, 1.10.1, 1.9.2, 1.8.0, 1.6.8, 1.6.7
Build Dependencies:
python, py-pip, py-wheel, py-radical-utils, py-radical-saga, py-pymongo, py-setproctitle, py-setuptools
Run Dependencies:
python, py-radical-utils, py-radical-saga, py-pymongo, py-setproctitle
Description:
RADICAL-Pilot is a Pilot system specialized in executing applications composed of many computational tasks on high performance computing (HPC) platforms.

py-radical-saga

Homepage:
Spack package:
Versions:
develop, 1.11.1, 1.8.0, 1.6.10, 1.6.8
Build Dependencies:
python, py-pip, py-wheel, py-radical-utils, py-apache-libcloud, py-parse, py-setuptools
Run Dependencies:
python, py-radical-utils, py-apache-libcloud, py-parse
Description:
RADICAL-SAGA (RS) implements the interface specification of the Open Grid Forum (OGF) Simple API for Grid Applications (SAGA) standard. RS works as a light-weight access layer for distributed computing infrastructures, providing adaptors for different middleware systems and services.

py-radical-utils

Homepage:
Spack package:
Versions:
develop, 1.11.0, 1.9.1, 1.8.4, 1.8.0, 1.6.7, 0.45, 0.41.1
Build Dependencies:
python, py-pip, py-wheel, py-radical-gtod, py-colorama, py-msgpack, py-netifaces, py-ntplib, py-pymongo, py-pyzmq, py-regex, py-setproctitle, py-setuptools
Run Dependencies:
python, py-radical-gtod, py-colorama, py-msgpack, py-netifaces, py-ntplib, py-pymongo, py-pyzmq, py-regex, py-setproctitle
Description:
RADICAL-Utils contains shared code and tools for various RADICAL- Cybertools packages.

py-ranger-fm

Homepage:
Spack package:
Versions:
1.9.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A VIM-inspired filemanager for the console

py-rapidfuzz

Homepage:
Spack package:
Versions:
1.8.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Link Dependencies:
python
Run Dependencies:
python, py-numpy
Description:
Rapid fuzzy string matching in Python and C++ using the Levenshtein Distance.

py-rarfile

Homepage:
Spack package:
Versions:
4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, unrar
Description:
RAR archive reader for Python.

py-rasterio

Homepage:
Spack package:
Versions:
master, 1.2.10, 1.2.3, 1.1.8, 1.1.5, 1.0.24, 1.0a12
Build Dependencies:
python, py-pip, py-wheel, py-numpy, gdal, py-cython, py-affine, py-attrs, py-certifi, py-click, py-cligj, py-snuggs, py-click-plugins, py-setuptools
Link Dependencies:
python, py-numpy, gdal
Run Dependencies:
python, py-numpy, py-affine, py-attrs, py-certifi, py-click, py-cligj, py-snuggs, py-click-plugins, py-setuptools, py-enum34
Description:
Rasterio reads and writes geospatial raster data. Geographic information systems use GeoTIFF and other formats to organize and store gridded, or raster, datasets. Rasterio reads and writes these formats and provides a Python API based on N-D arrays.

py-ratelim

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-decorator
Run Dependencies:
python, py-decorator
Description:
Makes it easy to respect rate limits.

py-ratelimiter

Homepage:
Spack package:
Versions:
1.2.0.post0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple Python module providing rate limiting.

py-raven

Homepage:
Spack package:
Versions:
6.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flask, py-blinker
Run Dependencies:
python, py-flask, py-blinker
Description:
Raven is a client for Sentry.

py-rbtools

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-colorama, py-texttable, py-tqdm, py-six, py-backports-shutil-get-terminal-size
Run Dependencies:
python, py-setuptools, py-colorama, py-texttable, py-tqdm, py-six, py-backports-shutil-get-terminal-size
Description:
RBTools is a set of command line tools and a rich Python API for use with Review Board.

py-rdflib

Homepage:
Spack package:
Versions:
6.0.2, 5.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing, py-isodate, py-six
Run Dependencies:
python, py-pyparsing, py-isodate, py-six
Description:
RDFLib is a pure Python package for working with RDF. RDFLib contains most things you need to work with RDF, including: parsers and serializers for RDF/XML, N3, NTriples, N-Quads, Turtle, TriX, Trig and JSON-LD (via a plugin). a Graph interface which can be backed by any one of a number of Store implementations store implementations for in-memory storage and persistent storage on top of the Berkeley DB a SPARQL 1.1 implementation - supporting SPARQL 1.1 Queries and Update statements

py-rdt

Homepage:
Spack package:
Versions:
0.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pandas, py-scipy, py-psutil
Run Dependencies:
python, py-numpy, py-pandas, py-scipy, py-psutil
Description:
RDT is a Python library used to transform data for data science libraries and preserve the transformations in order to revert them as needed.

py-readme-renderer

Homepage:
Spack package:
Versions:
24.0, 16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-bleach, py-docutils, py-pygments, py-six
Run Dependencies:
python, py-bleach, py-docutils, py-pygments, py-six
Description:
readme_renderer is a library for rendering "readme" descriptions for Warehouse.

py-recommonmark

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-commonmark, py-docutils, py-sphinx
Run Dependencies:
python, py-commonmark, py-docutils, py-sphinx
Description:
A docutils-compatibility bridge to CommonMark. This allows you to write CommonMark inside of Docutils & Sphinx projects. Documentation is available on Read the Docs: http://recommonmark.readthedocs.org

py-redis

Homepage:
Spack package:
Versions:
3.5.3, 3.5.0, 3.3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-hiredis
Run Dependencies:
python, py-hiredis
Description:
The Python interface to the Redis key-value store.

py-regex

Homepage:
Spack package:
Versions:
2020.11.13, 2019.11.1, 2019.02.07, 2018.01.10, 2017.07.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Alternative regular expression module, to replace re.

py-reindent

Homepage:
Spack package:
Versions:
3.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Change Python (.py) files to use 4-space indents and no hard tab characters. Also trim excess spaces and tabs from ends of lines, and remove empty lines at the end of files. Also ensure the last line ends with a newline.

py-reportlab

Homepage:
Spack package:
Versions:
3.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, pil, freetype
Link Dependencies:
freetype
Run Dependencies:
python, pil
Description:
The ReportLab Toolkit. An Open Source Python library for generating PDFs and graphics.

py-repoze-lru

Homepage:
Spack package:
Versions:
0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python
Description:
A tiny LRU cache implementation and decorator

py-reproject

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-cython, py-extension-helpers, py-numpy, py-astropy, py-scipy, py-astropy-healpix
Run Dependencies:
python, py-numpy, py-astropy, py-scipy, py-astropy-healpix
Description:
The reproject package is a Python package to reproject astronomical images using various techniques via a uniform interface. By reprojection, we mean the re-gridding of images from one world coordinate system to another (for example changing the pixel resolution, orientation, coordinate system). Currently, we have implemented reprojection of celestial images by interpolation (like SWARP), as well as by finding the exact overlap between pixels on the celestial sphere (like Montage). It can also reproject to/from HEALPIX projections by relying on the astropy-healpix package.

py-requests

Homepage:
Spack package:
Versions:
2.26.0, 2.25.1, 2.24.0, 2.23.0, 2.22.0, 2.21.0, 2.18.4, 2.14.2, 2.13.0, 2.11.1, 2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-chardet, py-charset-normalizer, py-idna, py-urllib3, py-certifi, py-pysocks
Run Dependencies:
python, py-chardet, py-charset-normalizer, py-idna, py-urllib3, py-certifi, py-pysocks
Description:
Python HTTP for Humans.

py-requests-ftp

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests
Run Dependencies:
python, py-requests
Description:
FTP Transport Adapter for Requests..

py-requests-futures

Homepage:
Spack package:
Versions:
1.0.0, 0.9.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-futures, py-requests
Run Dependencies:
python, py-futures, py-requests
Description:
Asynchronous Python HTTP Requests for Humans using Futures

py-requests-mock

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Mock out responses from the requests package.

py-requests-ntlm

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests, py-ntlm-auth, py-cryptography
Run Dependencies:
python, py-requests, py-ntlm-auth, py-cryptography
Description:
This package allows for HTTP NTLM authentication using the requests library.

py-requests-oauthlib

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 0.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-oauthlib, py-requests
Run Dependencies:
python, py-oauthlib, py-requests
Description:
This project provides first-class OAuth library support for Requests.

py-requests-toolbelt

Homepage:
Spack package:
Versions:
0.9.1, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests
Run Dependencies:
python, py-requests
Description:
A toolbelt of useful classes and functions to be used with python- requests

py-requests-unixsocket

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-requests, py-urllib3
Run Dependencies:
python, py-requests, py-urllib3
Description:
Use requests to talk HTTP via a UNIX domain socket.

py-resampy

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-numba, py-six
Run Dependencies:
python, py-numpy, py-scipy, py-numba, py-six
Description:
Efficient sample rate conversion in python

py-responses

Homepage:
Spack package:
Versions:
0.13.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-mock, py-cookies, py-requests, py-urllib3, py-six
Run Dependencies:
python, py-mock, py-cookies, py-requests, py-urllib3, py-six
Description:
A utility library for mocking out the `requests` Python library.

py-restview

Homepage:
Spack package:
Versions:
2.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-docutils, py-readme-renderer, py-pygments
Link Dependencies:
python
Run Dependencies:
python, py-docutils, py-readme-renderer, py-pygments
Description:
A viewer for ReStructuredText documents that renders them on the fly.

py-resultsfile

Homepage:
Spack package:
Versions:
2.0, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module to read output files of quantum chemistry programs

py-retry

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-decorator, py-py
Run Dependencies:
python, py-decorator, py-py
Description:
Easy to use retry decorator.

py-retry-decorator

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Decorator for retrying when exceptions occur

py-retrying

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Retrying is an Apache 2.0 licensed general-purpose retrying library, written in Python, to simplify the task of adding retry behavior to just about anything.

py-retworkx

Homepage:
Spack package:
Versions:
0.10.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-rust, py-numpy
Run Dependencies:
python, py-numpy
Description:
A high performance Python graph library implemented in Rust.

py-rfc3986

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-idna
Link Dependencies:
py-idna
Run Dependencies:
python
Description:
A Python implementation of RFC 3986 including validation and authority parsing.

py-rich

Homepage:
Spack package:
Versions:
10.14.0, 10.9.0, 10.0.0, 9.9.0, 9.8.2, 9.8.1, 9.8.0, 9.7.0, 9.6.2, 9.6.1, 9.6.0, 9.5.1, 9.5.0, 9.4.0
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-typing-extensions, py-dataclasses, py-pygments, py-commonmark, py-colorama
Run Dependencies:
python, py-typing-extensions, py-dataclasses, py-pygments, py-commonmark, py-colorama
Description:
Rich is a Python library for rich text and beautiful formatting in the terminal.

py-rios

Homepage:
Spack package:
Versions:
1.4.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, gdal
Run Dependencies:
python, py-numpy, gdal
Description:
Raster I/O Simplification. A set of python modules which makes it easy to write raster processing code in Python. Built on top of GDAL, it handles the details of opening and closing files, checking alignment of projection and raster grid, stepping through the raster in small blocks, etc., allowing the programmer to concentrate on the processing involved.

py-rioxarray

Homepage:
Spack package:
Versions:
0.4.1.post0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-rasterio, py-scipy, py-xarray, py-pyproj
Run Dependencies:
python, py-rasterio, py-scipy, py-xarray, py-pyproj
Description:
rasterio xarray extension.

py-rise

Homepage:
Spack package:
Versions:
5.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-notebook
Run Dependencies:
python, py-notebook
Description:
Reveal.js - Jupyter/IPython Slideshow Extension

py-rmm

Homepage:
Spack package:
Versions:
0.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numba, librmm, cuda, spdlog
Link Dependencies:
librmm, cuda, spdlog
Run Dependencies:
python, py-numba
Description:
RMM: RAPIDS Memory Manager. Achieving optimal performance in GPU-centric workflows frequently requires customizing how host and device memory are allocated.

py-rnacocktail

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pybedtools, py-pysam, py-pandas, py-numpy
Run Dependencies:
python, py-pybedtools, py-pysam, py-pandas, py-numpy
Description:
RNACocktail: A comprehensive framework for accurate and efficient RNA- Seq analysis.

py-rnc2rng

Homepage:
Spack package:
Versions:
2.6.6, 2.6.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-rply
Run Dependencies:
python, py-rply
Description:
RELAX NG Compact to regular syntax conversion library.

py-robotframework

Homepage:
Spack package:
Versions:
3.2.2, 3.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Cross-platform lib for process and system monitoring in Python.

py-rope

Homepage:
Spack package:
Versions:
0.11.0, 0.10.7, 0.10.6, 0.10.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
a python refactoring library.

py-rosdep

Homepage:
Spack package:
Versions:
0.20.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-catkin-pkg, py-rospkg, py-rosdistro, py-pyyaml
Run Dependencies:
python, py-setuptools, py-catkin-pkg, py-rospkg, py-rosdistro, py-pyyaml
Description:
rosdep package manager abstraction tool for ROS.

py-rosdistro

Homepage:
Spack package:
Versions:
0.8.3
Build Dependencies:
python, py-pip, py-wheel, py-pyyaml, py-setuptools, py-argparse, py-catkin-pkg, py-rospkg
Run Dependencies:
python, py-pyyaml, py-setuptools, py-argparse, py-catkin-pkg, py-rospkg
Description:
A tool to work with rosdistro files.

py-rosinstall

Homepage:
Spack package:
Versions:
0.7.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-vcstools, py-pyyaml, py-rosdistro, py-catkin-pkg, py-wstool
Run Dependencies:
python, py-vcstools, py-pyyaml, py-rosdistro, py-catkin-pkg, py-wstool
Description:
The installer for ROS.

py-rosinstall-generator

Homepage:
Spack package:
Versions:
0.1.22
Build Dependencies:
python, py-pip, py-wheel, py-catkin-pkg, py-rosdistro, py-rospkg, py-pyyaml, py-setuptools
Run Dependencies:
python, py-catkin-pkg, py-rosdistro, py-rospkg, py-pyyaml, py-setuptools
Description:
A tool for generating rosinstall files.

py-rospkg

Homepage:
Spack package:
Versions:
1.2.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-catkin-pkg, py-pyyaml, py-distro, py-argparse
Run Dependencies:
python, py-setuptools, py-catkin-pkg, py-pyyaml, py-distro, py-argparse
Description:
Library for retrieving information about ROS packages and stacks.

py-rply

Homepage:
Spack package:
Versions:
0.7.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-appdirs
Run Dependencies:
python, py-appdirs
Description:
A pure Python Lex/Yacc that works with RPython.

py-rpy2

Homepage:
Spack package:
Versions:
3.0.4, 3.0.0, 2.9.4, 2.8.6, 2.5.6, 2.5.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, r, py-cffi, py-simplegeneric, py-pytest, py-jinja2, py-six, py-singledispatch
Run Dependencies:
python, r, py-cffi, py-simplegeneric, py-pytest, py-jinja2, py-six, py-singledispatch
Description:
rpy2 is a redesign and rewrite of rpy. It is providing a low-level interface to R from Python, a proposed high-level interface, including wrappers to graphical libraries, as well as R-like structures and functions.

py-rq

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1, 1.5.0, 1.4.3, 1.4.2, 1.4.1, 1.4.0, 1.3.0, 1.2.2, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-redis, py-click
Run Dependencies:
python, py-redis, py-click
Description:
RQ (Redis Queue) is a simple Python library for queueing jobs and processing them in the background with workers.

py-rsa

Homepage:
Spack package:
Versions:
4.7.2, 4.0, 3.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyasn1
Run Dependencies:
python, py-setuptools, py-pyasn1
Description:
Pure-Python RSA implementation

py-rsatoolbox

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-coverage, py-numpy, py-scipy, py-scikit-learn, py-scikit-image, py-tqdm, py-h5py, py-matplotlib, py-joblib
Run Dependencies:
python, py-coverage, py-numpy, py-scipy, py-scikit-learn, py-scikit-image, py-tqdm, py-h5py, py-matplotlib, py-joblib
Description:
Representational Similarity Analysis (RSA) in Python.

py-rseqc

Homepage:
Spack package:
Versions:
3.0.1, 2.6.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nose, py-cython, py-bx-python, py-numpy, py-pysam, py-pybigwig
Run Dependencies:
python, py-cython, py-bx-python, py-numpy, py-pysam, py-pybigwig, r
Description:
RSeQC package provides a number of useful modules that can comprehensively evaluate high throughput sequence data especially RNA- seq data.

py-rst2pdf

Homepage:
Spack package:
Versions:
0.99
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-docutils, py-importlib-metadata, py-jinja2, py-packaging, py-pygments, py-pyyaml, py-reportlab, py-smartypants
Run Dependencies:
python, py-docutils, py-importlib-metadata, py-jinja2, py-packaging, py-pygments, py-pyyaml, py-reportlab, py-smartypants
Description:
Convert reStructured Text to PDF via ReportLab. The usual way of creating PDF from reStructuredText is by going through LaTeX. This tool provides an alternative by producing PDF directly using the ReportLab library.

py-rtree

Homepage:
Spack package:
Versions:
1.0.0, 0.9.7, 0.8.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-typing-extensions, libspatialindex
Link Dependencies:
libspatialindex
Run Dependencies:
python, py-typing-extensions
Description:
R-Tree spatial index for Python GIS.

py-ruamel-ordereddict

Homepage:
Spack package:
Versions:
0.4.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This is an implementation of an ordered dictionary with Key Insertion Order (KIO: updates of values do not affect the position of the key), Key Value Insertion Order (KVIO, an existing key's position is removed and put at the back). The standard library module OrderedDict, implemented later, implements a subset of ordereddict functionality.

py-ruamel-yaml

Homepage:
Spack package:
Versions:
0.17.16, 0.16.10, 0.16.5, 0.11.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ruamel-ordereddict, py-ruamel-yaml-clib
Run Dependencies:
python, py-ruamel-ordereddict, py-ruamel-yaml-clib
Description:
a YAML parser/emitter that supports roundtrip preservation of comments, seq/map flow style, and map key order

py-ruamel-yaml-clib

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
C version of reader, parser and emitter for ruamel.yaml derived from libyaml.

py-rx

Homepage:
Spack package:
Versions:
3.2.0, 1.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Reactive Extensions (Rx) for Python

py-s3cmd

Homepage:
Spack package:
Versions:
2.0.2, 2.0.1, 2.0.0, 1.6.1, 1.6.0, 1.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-python-magic
Run Dependencies:
python, py-python-dateutil, py-python-magic
Description:
S3cmd (s3cmd) is a free command line tool and client for uploading, retrieving and managing data in Amazon S3 and other cloud storage service providers that use the S3 protocol, such as Google Cloud Storage or DreamHost DreamObjects. It is best suited for power users who are familiar with command line programs.

py-s3fs

Homepage:
Spack package:
Versions:
0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-aiobotocore, py-fsspec
Run Dependencies:
python, py-aiobotocore, py-fsspec
Description:
S3FS builds on aiobotocore to provide a convenient Python filesystem interface for S3.

py-s3transfer

Homepage:
Spack package:
Versions:
0.5.0, 0.4.2, 0.3.4, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-botocore, py-futures
Run Dependencies:
python, py-botocore, py-futures
Description:
S3transfer is a Python library for managing Amazon S3 transfers.

py-sacremoses

Homepage:
Spack package:
Versions:
0.0.39
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-regex, py-six, py-click, py-joblib, py-tqdm
Run Dependencies:
python, py-regex, py-six, py-click, py-joblib, py-tqdm
Description:
LGPL MosesTokenizer in Python.

py-saga-python

Homepage:
Spack package:
Versions:
0.41.3
Build Dependencies:
python, py-pip, py-wheel, py-radical-utils, py-apache-libcloud, py-setuptools
Run Dependencies:
python, py-radical-utils, py-apache-libcloud
Description:
A light-weight access layer for distributed computing infrastructure. DEPRECATED (Please use `py-radical-saga`)

py-salib

Homepage:
Spack package:
Versions:
1.4.4, 1.4.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-pandas, py-pathos, py-importlib-metadata, py-setuptools-scm
Run Dependencies:
python, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-pandas, py-pathos, py-importlib-metadata, py-setuptools-scm
Description:
Python implementations of commonly used sensitivity analysis methods.

py-sanic

Homepage:
Spack package:
Versions:
20.6.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ujson, py-multidict, py-aiofiles, py-httptools, py-websockets, py-httpx, py-uvloop, py-chardet, py-hstspreload, py-h2, py-urllib3, py-brotlipy
Link Dependencies:
py-ujson, py-multidict, py-aiofiles, py-httptools, py-websockets, py-httpx, py-uvloop, py-chardet, py-hstspreload, py-h2, py-urllib3, py-brotlipy
Run Dependencies:
python
Description:
Sanic is a Flask-like Python 3.5+ web server that is written to go fast. It is based on the work done by the amazing folks at magicstack

py-scandir

Homepage:
Spack package:
Versions:
1.10.0, 1.9.0, 1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
scandir, a better directory iterator and faster os.walk().

py-schema

Homepage:
Spack package:
Versions:
0.7.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-contextlib2
Run Dependencies:
python, py-contextlib2
Description:
Simple data validation library

py-scientificpython

Homepage:
Spack package:
Versions:
2.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
ScientificPython is a collection of Python modules for scientific computing. It contains support for geometry, mathematical functions, statistics, physical units, IO, visualization, and parallelization.

py-scikit-build

Homepage:
Spack package:
Versions:
0.12.0, 0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-packaging, py-distro
Run Dependencies:
python, py-wheel, py-setuptools, py-packaging, py-distro
Description:
scikit-build is an improved build system generator for CPython C/C++/Fortran/Cython extensions. It provides better support for additional compilers, build systems, cross compilation, and locating dependencies and their associated build requirements. The scikit-build package is fundamentally just glue between the setuptools Python module and CMake.

py-scikit-fmm

Homepage:
Spack package:
Versions:
master, 2019.1.30
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy
Description:
scikit-fmm is a Python extension module which implements the fast marching method.

py-scikit-fuzzy

Homepage:
Spack package:
Versions:
0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-networkx, py-numpy, py-scipy
Run Dependencies:
python, py-networkx, py-numpy, py-scipy
Description:
Fuzzy logic toolkit for SciPy

py-scikit-image

Homepage:
Spack package:
Versions:
0.18.3, 0.18.1, 0.17.2, 0.14.2, 0.12.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpydoc, py-numpy, py-scipy, py-matplotlib, py-networkx, py-six, pil, py-imageio, py-tifffile, py-pywavelets, py-pooch, py-dask, py-cloudpickle
Link Dependencies:
python, py-numpy
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-networkx, py-six, pil, py-imageio, py-tifffile, py-pywavelets, py-pooch, py-dask, py-cloudpickle
Description:
Image processing algorithms for SciPy, including IO, morphology, filtering, warping, color manipulation, object detection, etc.

py-scikit-learn

Homepage:
Spack package:
Versions:
master, 1.1.1, 1.1.0, 1.0.2, 1.0.1, 1.0, 0.24.2, 0.24.1, 0.24.0, 0.23.2, 0.23.1, 0.23.0, 0.22.2.post1, 0.22.1, 0.22, 0.21.3, 0.21.2, 0.21.1, 0.20.3, 0.20.2, 0.20.0, 0.19.2, 0.19.1, 0.18.1, 0.17.1, 0.16.1, 0.15.2, 0.13.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-joblib, py-threadpoolctl, py-cython, llvm-openmp
Link Dependencies:
llvm-openmp
Run Dependencies:
python, py-numpy, py-scipy, py-joblib, py-threadpoolctl
Test Dependencies:
py-matplotlib, py-scikit-image, py-pandas, py-pytest, py-pyamg
Description:
A set of python modules for machine learning and data mining.

py-scikit-learn-extra

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-scikit-learn
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn
Description:
A set of useful tools compatible with scikit-learn scikit-learn-extra is a Python module for machine learning that extends scikit-learn. It includes algorithms that are useful but do not satisfy the scikit-learn inclusion criteria, for instance due to their novelty or lower citation number.

py-scikit-optimize

Homepage:
Spack package:
Versions:
master, 0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-scikit-learn, py-pyyaml, py-matplotlib
Link Dependencies:
py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-scikit-learn, py-pyyaml
Description:
Scikit-Optimize, or skopt, is a simple and efficient library to minimize (very) expensive and noisy black-box functions. It implements several methods for sequential model-based optimization. skopt aims to be accessible and easy to use in many contexts. The library is built on top of NumPy, SciPy and Scikit-Learn.

py-scinum

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Scientific numbers with multiple uncertainties and correlation-aware, gaussian propagation and numpy

py-scipy

Homepage:
Spack package:
Versions:
master, 1.8.1, 1.8.0, 1.7.3, 1.7.2, 1.7.1, 1.7.0, 1.6.3, 1.6.2, 1.6.1, 1.6.0, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.1, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.3, 1.2.2, 1.2.1, 1.1.0, 1.0.0, 0.19.1, 0.18.1, 0.17.0, 0.15.1, 0.15.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-pybind11, py-pythran, py-numpy, blas, lapack
Link Dependencies:
python, py-pybind11, py-pythran, py-numpy, blas, lapack
Run Dependencies:
python, py-numpy
Test Dependencies:
py-pytest
Description:
SciPy (pronounced "Sigh Pie") is a Scientific Library for Python. It provides many user-friendly and efficient numerical routines such as routines for numerical integration and optimization.

py-scooby

Homepage:
Spack package:
Versions:
0.5.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Great Dane turned Python environment detective.

py-scoop

Homepage:
Spack package:
Versions:
0.7.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-greenlet, py-pyzmq, py-argparse
Run Dependencies:
python, py-greenlet, py-pyzmq, py-argparse
Description:
SCOOP (Scalable COncurrent Operations in Python) is a distributed task module allowing concurrent parallel programming on various environments, from heterogeneous grids to supercomputers.

py-scp

Homepage:
Spack package:
Versions:
0.13.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-paramiko
Run Dependencies:
python, py-paramiko
Description:
scp module for paramiko

py-scs

Homepage:
Spack package:
Versions:
2.1.1-2
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Link Dependencies:
cuda
Run Dependencies:
python, py-numpy, py-scipy
Description:
SCS: splitting conic solver

py-sdmetrics

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pandas, py-scikit-learn, py-scipy, py-torch, py-copulas, py-rdt, py-pyts
Run Dependencies:
python, py-numpy, py-pandas, py-scikit-learn, py-scipy, py-torch, py-copulas, py-rdt, py-pyts
Description:
The SDMetrics library provides a set of dataset-agnostic tools for evaluating the quality of a synthetic database by comparing it to the real database that it is modeled after.

py-sdv

Homepage:
Spack package:
Versions:
0.14.0, 0.13.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-faker, py-graphviz, py-numpy, py-pandas, py-tqdm, py-copulas, py-ctgan, py-deepecho, py-rdt, py-sdmetrics
Run Dependencies:
python, py-faker, py-graphviz, py-numpy, py-pandas, py-tqdm, py-copulas, py-ctgan, py-deepecho, py-rdt, py-sdmetrics
Description:
The Synthetic Data Vault (SDV) is a Synthetic Data Generation ecosystem of libraries that allows users to easily learn single-table, multi-table and timeseries datasets to later on generate new Synthetic Data that has the same format and statistical properties as the original dataset.

py-seaborn

Homepage:
Spack package:
Versions:
0.11.2, 0.11.1, 0.9.0, 0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-pandas, py-matplotlib
Run Dependencies:
python, py-numpy, py-scipy, py-pandas, py-matplotlib
Description:
Seaborn: statistical data visualization. Seaborn is a library for making attractive and informative statistical graphics in Python. It is built on top of matplotlib and tightly integrated with the PyData stack, including support for numpy and pandas data structures and statistical routines from scipy and statsmodels.

py-secretstorage

Homepage:
Spack package:
Versions:
3.3.1, 3.1.2, 2.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cryptography, py-jeepney
Run Dependencies:
python, py-cryptography, py-jeepney
Description:
Python bindings to FreeDesktop.org Secret Service API.

py-segmentation-models-pytorch

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torchvision, py-pretrainedmodels, py-efficientnet-pytorch, py-timm
Run Dependencies:
python, py-torchvision, py-pretrainedmodels, py-efficientnet-pytorch, py-timm
Description:
Python library with Neural Networks for Image Segmentation based on PyTorch.

py-selectors34

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six
Run Dependencies:
python, py-six
Description:
Backport of the selectors module from Python 3.4.

py-selenium

Homepage:
Spack package:
Versions:
3.141.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-urllib3
Run Dependencies:
python, py-urllib3
Description:
Python language bindings for Selenium WebDriver. The selenium package is used to automate web browser interaction from Python.

py-semantic-version

Homepage:
Spack package:
Versions:
2.8.2, 2.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This small python library provides a few tools to handle SemVer in Python. It follows strictly the 2.0.0 version of the SemVer scheme.

py-semver

Homepage:
Spack package:
Versions:
2.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Python module for semantic versioning. Simplifies comparing versions.

py-send2trash

Homepage:
Spack package:
Versions:
1.8.0, 1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python library to send files to Trash/Recycle on all platforms.

py-sentencepiece

Homepage:
Spack package:
Versions:
0.1.91, 0.1.85
Build Dependencies:
python, py-pip, py-wheel, sentencepiece, pkgconfig, py-setuptools
Link Dependencies:
sentencepiece
Run Dependencies:
python
Description:
Unsupervised text tokenizer for Neural Network-based text generation. These are the Python bindings.

py-seqeval

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scikit-learn
Run Dependencies:
python, py-numpy, py-scikit-learn
Description:
seqeval is a Python framework for sequence labeling evaluation. seqeval can evaluate the performance of chunking tasks such as named-entity recognition, part-of-speech tagging, semantic role labeling and so on.

py-seriate

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-packaging, py-or-tools
Run Dependencies:
python, py-numpy, py-packaging, py-or-tools
Description:
This is a Python implementation of Seriation algorithm. Seriation is an approach for ordering elements in a set so that the sum of the sequential pairwise distances is minimal. We state this task as a Travelling Salesman Problem (TSP) and leverage the powerful Google's or- tools to do heavy-lifting. Since TSP is NP-hard, it is not possible to calculate the precise solution for a big number of elements. However, the or-tools' heuristics work very well in practice, and they are used in e.g. Google Maps.

py-serpent

Homepage:
Spack package:
Versions:
1.40
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Serialization based on ast.literal_eval

py-setproctitle

Homepage:
Spack package:
Versions:
1.1.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The setproctitle module allows a process to change its title (as displayed by system tools such as ps and top).

py-setupmeta

Homepage:
Spack package:
Versions:
3.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Simplify your setup.py.

py-setuptools

Homepage:
Spack package:
Versions:
59.4.0, 58.2.0, 57.4.0, 57.1.0, 51.0.0, 50.3.2, 50.1.0, 49.6.0, 49.2.0, 46.1.3, 44.1.1, 44.1.0, 43.0.0, 41.4.0, 41.3.0, 41.0.1, 41.0.0, 40.8.0, 40.4.3, 40.2.0, 39.2.0, 39.0.1, 25.2.0, 20.7.0, 20.6.7, 19.2, 18.1, 16.0, 11.3.1
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
A Python utility that aids in the process of downloading, building, upgrading, installing, and uninstalling Python packages.

py-setuptools-git

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, git
Link Dependencies:
git
Run Dependencies:
python
Description:
Setuptools revision control system plugin for Git

py-setuptools-rust

Homepage:
Spack package:
Versions:
0.12.1, 0.10.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-semantic-version, py-toml
Run Dependencies:
python, py-setuptools, py-semantic-version, py-toml, rust
Description:
Setuptools rust extension plugin.

py-setuptools-scm

Homepage:
Spack package:
Versions:
6.3.2, 6.0.1, 5.0.2, 4.1.2, 3.5.0, 3.3.3, 3.1.0, 1.15.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-toml, py-tomli, py-packaging
Run Dependencies:
python, py-setuptools, py-toml, py-tomli, py-packaging
Description:
The blessed package to manage your versions by scm tags.

py-setuptools-scm-git-archive

Homepage:
Spack package:
Versions:
1.1, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python, py-setuptools-scm
Description:
This is a setuptools_scm plugin that adds support for git archives (for example the ones GitHub automatically generates).

py-sfepy

Homepage:
Spack package:
Versions:
2021.3, 2017.3
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-setuptools
Run Dependencies:
python, py-numpy, py-six, py-scipy, py-matplotlib, py-sympy, hdf5, py-tables, py-meshio, py-psutil, py-pyvista, py-opt-einsum, py-dask, py-petsc4py, py-slepc4py, py-pyamg, mumps
Description:
SfePy (https://sfepy.org/) is a software for solving systems of coupled partial differential equations (PDEs) by the finite element method in 1D, 2D and 3D. It can be viewed both as black-box PDE solver, and as a Python package which can be used for building custom applications.

py-sgp4

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Track earth satellite TLE orbits using up-to-date 2010 version of SGP4

py-sh

Homepage:
Spack package:
Versions:
1.12.9, 1.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python subprocess interface

py-shapely

Homepage:
Spack package:
Versions:
master, 1.8.2, 1.8.1, 1.8.0, 1.7.1, 1.7.0, 1.6.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, geos
Link Dependencies:
python, py-numpy, geos
Run Dependencies:
python, py-numpy
Test Dependencies:
py-pytest, py-pytest-cov
Description:
Manipulation and analysis of geometric objects in the Cartesian plane.

py-shellingham

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Tool to Detect Surrounding Shell

py-shiboken

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
python, py-pip, py-wheel, cmake, py-setuptools, py-sphinx, libxml2, qt
Link Dependencies:
libxml2, qt
Run Dependencies:
python, py-sphinx
Description:
Shiboken generates bindings for C++ libraries using CPython.

py-shiboken2

Homepage:
Spack package:
Versions:
5.15.2
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Python / C++ bindings helper module.

py-shortuuid

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0, 0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A generator library for concise, unambiguous and URL-safe UUIDs.

py-shroud

Homepage:
Spack package:
Versions:
develop, master, 0.12.1, 0.11.0, 0.10.1, 0.9.0, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml
Run Dependencies:
python, py-setuptools, py-pyyaml
Description:
Create Fortran wrappers for a C++ library.

py-shtab

Homepage:
Spack package:
Versions:
1.3.4, 1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Automatically generate shell tab completion scripts for python CLI apps.

py-simplegeneric

Homepage:
Spack package:
Versions:
0.8.1, 0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple generic functions (similar to Python's own len(), pickle.dump(), etc.)

py-simplejson

Homepage:
Spack package:
Versions:
3.17.2, 3.16.1, 3.16.0, 3.10.0, 3.9.0, 3.8.2, 3.8.1, 3.8.0, 3.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simplejson is a simple, fast, extensible JSON encoder/decoder for Python

py-simplekml

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
simplekml is a python package which enables you to generate KML with as little effort as possible.

py-singledispatch

Homepage:
Spack package:
Versions:
3.7.0, 3.4.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six, py-ordereddict
Run Dependencies:
python, py-six, py-ordereddict
Description:
This library brings functools.singledispatch to Python 2.6-3.3.

py-sip

Homepage:
Spack package:
Versions:
6.4.0, 5.5.0, 4.19.21, 4.19.20, 4.19.19, 4.19.18, 4.19.15, 4.19.13
Build Dependencies:
python, py-pip, py-wheel, py-packaging, py-setuptools, py-toml, flex, bison
Run Dependencies:
python
Description:
A Python bindings generator for C/C++ libraries.

py-six

Homepage:
Spack package:
Versions:
1.16.0, 1.15.0, 1.14.0, 1.12.0, 1.11.0, 1.10.0, 1.9.0, 1.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python 2 and 3 compatibility utilities.

py-skl2onnx

Homepage:
Spack package:
Versions:
1.10.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-protobuf, py-onnx, py-scikit-learn, py-onnxconverter-common
Run Dependencies:
python, py-numpy, py-scipy, py-protobuf, py-onnx, py-scikit-learn, py-onnxconverter-common
Description:
Convert scikit-learn models to ONNX

py-slepc4py

Homepage:
Spack package:
Versions:
main, 3.17.1, 3.17.0, 3.16.3, 3.16.2, 3.16.1, 3.16.0, 3.15.2, 3.15.1, 3.15.0, 3.13.0, 3.12.0, 3.11.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-setuptools, py-petsc4py, slepc
Link Dependencies:
slepc
Run Dependencies:
python, py-petsc4py
Description:
This package provides Python bindings for the SLEPc package.

py-slurm-pipeline

Homepage:
Spack package:
Versions:
4.0.4, 3.0.2, 2.0.9, 1.1.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest, py-six
Run Dependencies:
python, py-six
Description:
A Python class for scheduling SLURM jobs

py-smac

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-psutil, py-pynisher, py-configspace, py-joblib, py-scikit-learn, py-pyrfr, py-dask, py-distributed, py-emcee
Run Dependencies:
python, py-numpy, py-scipy, py-psutil, py-pynisher, py-configspace, py-joblib, py-scikit-learn, py-pyrfr, py-dask, py-distributed, py-emcee
Description:
SMAC is a tool for algorithm configuration to optimize the parameters of arbitrary algorithms, including hyperparameter optimization of Machine Learning algorithms.

py-smart-open

Homepage:
Spack package:
Versions:
5.2.1, 1.10.0, 1.8.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-google-cloud-storage, py-boto3, py-requests, py-azure-storage-blob, py-azure-common, py-azure-core, py-bz2file, py-boto
Run Dependencies:
python, py-google-cloud-storage, py-boto3, py-requests, py-azure-storage-blob, py-azure-common, py-azure-core, py-bz2file, py-boto
Description:
smart_open is a Python 2 & Python 3 library for efficient streaming of very large files from/to S3, HDFS, WebHDFS, HTTP, or local storage. It supports transparent, on-the-fly (de-)compression for a variety of different formats.

py-smartypants

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
smartypants is a Python fork of SmartyPants.

py-smmap

Homepage:
Spack package:
Versions:
3.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure Python implementation of a sliding window memory map manager

py-snappy

Homepage:
Spack package:
Versions:
0.1.0-alpha.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A pure python implementation of the Snappy compression algorithm.

py-sncosmo

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-astropy, py-matplotlib, py-iminuit, py-emcee, py-nestle
Run Dependencies:
python, py-numpy, py-scipy, py-astropy, py-matplotlib, py-iminuit, py-emcee, py-nestle
Description:
SNCosmo is a Python library for high-level supernova cosmology analysis.

py-sniffio

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-contextvars
Run Dependencies:
python, py-contextvars
Description:
This is a tiny package whose only purpose is to let you detect which async library your code is running under.

py-snowballstemmer

Homepage:
Spack package:
Versions:
2.0.0, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This package provides 16 stemmer algorithms (15 + Poerter English stemmer) generated from Snowball algorithms.

py-snuggs

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-click, py-pyparsing
Run Dependencies:
python, py-numpy, py-click, py-pyparsing
Description:
Snuggs are s-expressions for Numpy

py-sobol-seq

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-numpy
Run Dependencies:
python, py-scipy, py-numpy
Description:
Sobol sequence implementation in python

py-sonlib

Homepage:
Spack package:
Versions:
20200401, devel
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Small general purpose library for C and Python with focus on bioinformatics.

py-sortedcollections

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sortedcontainers
Run Dependencies:
python, py-sortedcontainers
Description:
Sorted Collections is an Apache2 licensed Python sorted collections library.

py-sortedcontainers

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Sorted Containers is an Apache2 licensed sorted collections library, written in pure-Python, and fast as C-extensions.

py-soundfile

Homepage:
Spack package:
Versions:
0.10.3.post1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cffi, py-numpy
Run Dependencies:
python, py-cffi, py-numpy, libsndfile
Description:
SoundFile is an audio library based on libsndfile, CFFI and NumPy.

py-soupsieve

Homepage:
Spack package:
Versions:
2.2.1, 1.9.6, 1.9.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-functools-lru-cache
Run Dependencies:
python, py-backports-functools-lru-cache
Description:
A modern CSS selector implementation for Beautiful Soup.

py-spacy

Homepage:
Spack package:
Versions:
2.3.7, 2.3.2, 2.2.4
Build Dependencies:
python, py-pip, py-wheel, py-cython, py-cymem, py-preshed, py-murmurhash, py-thinc, py-blis, py-wasabi, py-srsly, py-catalogue, py-tqdm, py-setuptools, py-numpy, py-plac, py-requests, py-pathlib
Run Dependencies:
python, py-cymem, py-preshed, py-murmurhash, py-thinc, py-blis, py-wasabi, py-srsly, py-catalogue, py-tqdm, py-setuptools, py-numpy, py-plac, py-requests, py-pathlib
Description:
spaCy is a library for advanced Natural Language Processing in Python and Cython.

py-spacy-models-en-core-web-sm

Homepage:
Spack package:
Versions:
2.3.1, 2.2.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-spacy
Run Dependencies:
python, py-spacy
Description:
English multi-task CNN trained on OntoNotes. Assigns context-specific token vectors, POS tags, dependency parse and named entities.

py-spacy-models-en-vectors-web-lg

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-spacy
Run Dependencies:
python, py-spacy
Description:
1.2m 300d vectors trained on Common Crawl with GloVe

py-sparse

Homepage:
Spack package:
Versions:
0.11.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-numba
Run Dependencies:
python, py-numpy, py-scipy, py-numba
Description:
This library provides multi-dimensional sparse arrays.

py-spatialist

Homepage:
Spack package:
Versions:
0.4, 0.2.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-progressbar2, py-jupyter, py-ipython, py-ipywidgets, py-matplotlib, py-prompt-toolkit, py-pathos, py-numpy, py-scoop, py-tblib, py-pyyaml
Run Dependencies:
python, py-progressbar2, py-jupyter, py-ipython, py-ipywidgets, py-matplotlib, py-prompt-toolkit, py-pathos, py-numpy, py-scoop, py-tblib, py-pyyaml
Description:
This package offers functionalities for user-friendly geo data processing using GDAL and OGR.

py-spatialite

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, libspatialite
Link Dependencies:
libspatialite
Run Dependencies:
python
Description:
Wrapper for standard Python module "sqlite3" which adds SpatiaLite support.

py-spdlog

Homepage:
Spack package:
Versions:
master, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-pybind11, py-setuptools, py-pytest-runner
Run Dependencies:
python, py-pybind11
Description:
The py-spdlog package provides a Python wrapper to the C++ spdlog library.

py-spectra

Homepage:
Spack package:
Versions:
0.0.11, 0.0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-colormath
Run Dependencies:
python, py-colormath
Description:
Color scales and color conversion made easy for Python.

py-spectral

Homepage:
Spack package:
Versions:
0.22.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Spectral Python (SPy) is a pure Python module for processing hyperspectral image data (imaging spectroscopy data). It has functions for reading, displaying, manipulating, and classifying hyperspectral imagery. SPy is Free, Open Source Software (FOSS) distributed under the MIT License.

py-speech-recognition

Homepage:
Spack package:
Versions:
3.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library for performing speech recognition, with support for several engines and APIs, online and offline.

py-spefile

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Reader for SPE files part of pyspec a set of python routines for data analysis of x-ray scattering experiments

py-spgl1

Homepage:
Spack package:
Versions:
master, 0.0.2, 0.0.1
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-setuptools
Run Dependencies:
python, py-numpy, py-scipy
Description:
SPGL1 is a solver for large-scale one-norm regularized least squares. It is designed to solve any of the following three problems: Basis pursuit denoise (BPDN): minimize ||x||_1 subject to ||Ax - b||_2 <= sigma, Basis pursuit (BP): minimize ||x||_1 subject to Ax = b Lasso: minimize ||Ax - b||_2 subject to ||x||_1 <= tau, The matrix A can be defined explicitly, or as an operator that returns both both Ax and A'b. SPGL1 can solve these three problems in both the real and complex domains.

py-spglib

Homepage:
Spack package:
Versions:
1.16.1, 1.9.9.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-setuptools, py-numpy
Description:
Python bindings for C library for finding and handling crystal symmetries.

py-spherical

Homepage:
Spack package:
Versions:
1.0.10
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-importlib-metadata, py-numpy, py-numba, py-quaternionic
Run Dependencies:
python, py-importlib-metadata, py-numpy, py-numba, py-quaternionic
Description:
Evaluate and transform D matrices, 3-j symbols, and (scalar or spin- weighted) spherical harmonics

py-sphinx-argparse

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-sphinx, py-poetry-core, py-setuptools
Run Dependencies:
python, py-sphinx
Description:
Sphinx extension to automatically document argparse-based commands.

py-sphinx-autodoc-typehints

Homepage:
Spack package:
Versions:
1.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
Type hints (PEP 484) support for the Sphinx autodoc extension

py-sphinx-bootstrap-theme

Homepage:
Spack package:
Versions:
0.4.13
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Sphinx Bootstrap Theme.

py-sphinx-copybutton

Homepage:
Spack package:
Versions:
0.2.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Link Dependencies:
py-sphinx
Run Dependencies:
python
Description:
A small sphinx extension to add a "copy" button to code blocks.

py-sphinx-multiversion

Homepage:
Spack package:
Versions:
0.2.4, 0.2.3, 0.2.2, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
A Sphinx extension for building self-hosted versioned documentation.

py-sphinx-rtd-theme

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1, 0.5.0, 0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-docutils
Run Dependencies:
python, py-sphinx, py-docutils
Description:
ReadTheDocs.org theme for Sphinx.

py-sphinx-tabs

Homepage:
Spack package:
Versions:
3.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-pygments, py-docutils
Run Dependencies:
python, py-sphinx, py-pygments, py-docutils
Description:
Create tabbed content in Sphinx documentation when building HTML.

py-sphinxautomodapi

Homepage:
Spack package:
Versions:
0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
Provides Sphinx directives to autogenerate API documentation pages

py-sphinxcontrib-applehelp

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-applehelp is a sphinx extension which outputs Apple help books.

py-sphinxcontrib-bibtex

Homepage:
Spack package:
Versions:
2.2.1, 2.2.0, 2.1.4, 2.0.0, 1.0.0, 0.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-latexcodec, py-pybtex, py-pybtex-docutils, py-six, py-sphinx, py-oset, py-ordereddict, py-docutils, py-dataclasses
Run Dependencies:
python, py-latexcodec, py-pybtex, py-pybtex-docutils, py-six, py-sphinx, py-oset, py-ordereddict, py-docutils, py-dataclasses
Description:
A Sphinx extension for BibTeX style citations.

py-sphinxcontrib-devhelp

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-devhelp is a sphinx extension which outputs Devhelp document.

py-sphinxcontrib-htmlhelp

Homepage:
Spack package:
Versions:
2.0.0, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-htmlhelp is a sphinx extension which outputs htmlhelp document.

py-sphinxcontrib-issuetracker

Homepage:
Spack package:
Versions:
0.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-requests
Run Dependencies:
python, py-sphinx, py-requests
Description:
Sphinx integration with different issuetrackers.

py-sphinxcontrib-jsmath

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A sphinx extension which renders display math in HTML via JavaScript.

py-sphinxcontrib-mermaid

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
This extension allows you to embed `Mermaid <http://knsv.github.io/mermaid/>`_ graphs in your documents, including general flowcharts, sequence and gantt diagrams.

py-sphinxcontrib-napoleon

Homepage:
Spack package:
Versions:
0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pockets
Run Dependencies:
python, py-six, py-pockets
Description:
Sphinx "napoleon" extension.

py-sphinxcontrib-programoutput

Homepage:
Spack package:
Versions:
0.15, 0.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
A Sphinx extension to literally insert the output of arbitrary commands into documents, helping you to keep your command examples up to date.

py-sphinxcontrib-qthelp

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-qthelp is a sphinx extension which outputs QtHelp document.

py-sphinxcontrib-serializinghtml

Homepage:
Spack package:
Versions:
1.1.5, 1.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-serializinghtml is a sphinx extension which outputs "serialized" HTML files (json and pickle).

py-sphinxcontrib-trio

Homepage:
Spack package:
Versions:
1.1.2, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx
Run Dependencies:
python, py-sphinx
Description:
This sphinx extension helps you document Python code that uses async/await, or abstract methods, or context managers, or generators, or ... you get the idea.

py-sphinxcontrib-websupport

Homepage:
Spack package:
Versions:
1.1.2, 1.1.0, 1.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
sphinxcontrib-webuspport provides a Python API to easily integrate Sphinx documentation into your Web application.

py-sphobjinv

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-attrs, py-certifi, py-fuzzywuzzy, py-jsonschema
Run Dependencies:
python, py-setuptools, py-attrs, py-certifi, py-fuzzywuzzy, py-jsonschema
Description:
Sphinx objects.inv Inspection/Manipulation Tool.

py-spykeutils

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scipy, py-quantities, py-neo
Run Dependencies:
python, py-scipy, py-quantities, py-neo
Description:
Utilities for analyzing electrophysiological data

py-sqlalchemy

Homepage:
Spack package:
Versions:
1.4.20, 1.3.19, 1.3.9, 1.2.19, 1.2.10, 1.1.18, 1.0.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-mysqlclient, py-pymysql, py-psycopg2
Run Dependencies:
python, py-importlib-metadata, py-greenlet, py-mysqlclient, py-pymysql, py-psycopg2
Description:
The Python SQL Toolkit and Object Relational Mapper

py-sqlalchemy-stubs

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
python, py-pip, py-wheel, py-mypy, py-typing-extensions, py-setuptools
Run Dependencies:
python, py-mypy, py-typing-extensions
Description:
Mypy plugin and stubs for SQLAlchemy

py-sqlalchemy-utils

Homepage:
Spack package:
Versions:
0.36.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-sqlalchemy
Run Dependencies:
python, py-six, py-sqlalchemy
Description:
Various utility functions and custom data types for SQLAlchemy.

py-sqlparse

Homepage:
Spack package:
Versions:
0.4.1, 0.3.1, 0.3.0, 0.2.4, 0.2.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A non-validating SQL parser module for Python.

py-srsly

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0, 1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-pathlib
Run Dependencies:
python, py-pathlib
Description:
srsly: Modern high-performance serialization utilities for Python.

py-sshtunnel

Homepage:
Spack package:
Versions:
0.1.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-paramiko
Run Dependencies:
python, py-paramiko
Description:
Pure python SSH tunnels.

py-stack-data

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-executing, py-asttokens, py-pure-eval
Run Dependencies:
python, py-executing, py-asttokens, py-pure-eval
Description:
Extract data from python stack frames and tracebacks for informative displays.

py-statsmodels

Homepage:
Spack package:
Versions:
0.13.1, 0.13.0, 0.12.2, 0.12.1, 0.10.2, 0.10.1, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-pandas, py-patsy, py-scipy, py-matplotlib
Link Dependencies:
python, py-numpy
Run Dependencies:
python, py-numpy, py-pandas, py-patsy, py-scipy, py-matplotlib
Test Dependencies:
py-pytest
Description:
Statistical computations and models for use with SciPy

py-stdlib-list

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-functools32, py-setuptools
Run Dependencies:
python, py-functools32
Description:
This package includes lists of all of the standard libraries for Python, along with the code for scraping the official Python docs to get said lists.

py-stestr

Homepage:
Spack package:
Versions:
2.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A parallel Python test runner built around subunit.

py-stevedore

Homepage:
Spack package:
Versions:
3.5.0, 1.28.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-pbr
Run Dependencies:
python, py-six, py-pbr
Description:
Manage Dynamic Plugins for Python Applications.

py-stomp-py

Homepage:
Spack package:
Versions:
8.0.0
Build Dependencies:
python, py-pip, py-wheel, py-poetry, py-docopt
Run Dependencies:
python, py-docopt
Description:
Python client library for accessing messaging servers (such as ActiveMQ, Artemis or RabbitMQ) using the STOMP protocol (STOMP v1.0, STOMP v1.1 and STOMP v1.2)

py-stopit

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Raise asynchronous exceptions in other threads, control the timeout of blocks or callables with two context managers and two decorators.

py-storm

Homepage:
Spack package:
Versions:
0.25, 0.23, 0.20
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-zope-interface
Run Dependencies:
python, py-six, py-zope-interface
Description:
Storm is an object-relational mapper (ORM) for Python

py-stratify

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-cython
Run Dependencies:
python, py-numpy, py-cython
Description:
Vectorized interpolators that are especially useful for Nd vertical interpolation/stratification of atmospheric and oceanographic datasets.

py-stsci-distutils

Homepage:
Spack package:
Versions:
0.3.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-d2to1
Run Dependencies:
python
Description:
This package contains utilities used to package some of STScI's Python projects.

py-submitit

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cloudpickle, py-typing-extensions
Run Dependencies:
python, py-setuptools, py-cloudpickle, py-typing-extensions
Description:
Python toolbox for submitting jobs to Slurm.

py-subprocess32

Homepage:
Spack package:
Versions:
3.5.4, 3.2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A backport of the subprocess module from Python 3.2/3.3 for 2.x.

py-subrosa

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-gf256
Run Dependencies:
python, py-gf256
Description:
Subrosa is a Python implementation of Shamir's Secret Sharing. An algorithm for sharing a secret with a group of people without letting any individual of the group know the secret.

py-svgpathtools

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-svgwrite
Run Dependencies:
python, py-numpy, py-svgwrite
Description:
A collection of tools for manipulating and analyzing SVG Path objects and Bezier curves.

py-svgutils

Homepage:
Spack package:
Versions:
0.3.4, 0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-lxml
Run Dependencies:
python, py-lxml
Description:
Python tools to create and manipulate SVG files.

py-svgwrite

Homepage:
Spack package:
Versions:
1.1.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyparsing
Run Dependencies:
python, py-pyparsing
Description:
A Python library to create SVG drawings.

py-symengine

Homepage:
Spack package:
Versions:
master, 0.8.1, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, cmake, symengine
Link Dependencies:
symengine
Run Dependencies:
python
Description:
Python wrappers for SymEngine, a symbolic manipulation library.

py-symfit

Homepage:
Spack package:
Versions:
0.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr
Run Dependencies:
python, py-numpy, py-scipy, py-sympy, py-funcsigs
Description:
Symbolic Fitting; fitting as it should be.

py-sympy

Homepage:
Spack package:
Versions:
1.8, 1.7.1, 1.7, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4, 1.3, 1.1.1, 1.0, 0.7.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-mpmath
Run Dependencies:
python, py-mpmath
Description:
SymPy is a Python library for symbolic mathematics.

py-syned

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, py-setuptools
Link Dependencies:
py-numpy, py-scipy, py-setuptools
Run Dependencies:
python
Description:
A python library to define the components of a synchrotron beamline and their positions. They can be read/write to json files. It is used by OASYS as a common tool to define sources and optical systems that are then exported to the different add-ons.

py-systemd-python

Homepage:
Spack package:
Versions:
234
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python interface for libsystemd

py-tables

Homepage:
Spack package:
Versions:
3.6.1, 3.6.0, 3.5.2, 3.4.4, 3.3.0, 3.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-numexpr, py-six, hdf5, c-blosc, zlib, bzip2, lzo
Link Dependencies:
hdf5, c-blosc, zlib, bzip2, lzo
Run Dependencies:
python, py-setuptools, py-numpy, py-numexpr, py-six
Description:
PyTables is a package for managing hierarchical datasets and designed to efficiently and easily cope with extremely large amounts of data.

py-tabulate

Homepage:
Spack package:
Versions:
0.8.9, 0.8.7, 0.8.6, 0.8.5, 0.8.3, 0.7.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Pretty-print tabular data

py-tap-py

Homepage:
Spack package:
Versions:
3.0, 2.6.2, 1.6
Build Dependencies:
python, py-pip, py-wheel, py-nose, py-pygments, py-setuptools
Link Dependencies:
python
Run Dependencies:
python, py-nose, py-pygments, py-setuptools
Description:
Python TAP interface module for unit tests

py-tatsu

Homepage:
Spack package:
Versions:
4.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses, py-regex
Run Dependencies:
python, py-dataclasses, py-regex
Description:
TatSu (the successor to Grako) is a tool that takes grammars in a variation of EBNF as input, and outputs memoizing (Packrat) PEG parsers in Python.

py-tblib

Homepage:
Spack package:
Versions:
1.6.0, 1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Traceback fiddling library. Allows you to pickle tracebacks.

py-templateflow

Homepage:
Spack package:
Versions:
0.7.1, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-pybids, py-requests, py-tqdm
Run Dependencies:
python, py-pybids, py-requests, py-tqdm
Description:
A python client to query TemplateFlow via pyBIDS.

py-tempora

Homepage:
Spack package:
Versions:
1.14.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six, py-pytz, py-jaraco-functools
Run Dependencies:
python, py-six, py-pytz, py-jaraco-functools
Description:
Objects and routines pertaining to date and time (tempora)

py-tenacity

Homepage:
Spack package:
Versions:
6.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-six, py-futures, py-monotonic, py-typing
Run Dependencies:
python, py-six, py-futures, py-monotonic, py-typing
Description:
Retrying library for Python

py-tensorboard

Homepage:
Spack package:
Versions:
2.7.0, 2.6.0, 2.5.0, 2.4.1, 2.4.0, 2.3.0, 2.2.0
Build Dependencies:
python, bazel, py-pip, py-wheel, py-setuptools, py-absl-py, py-markdown, py-requests, py-futures, py-grpcio, py-google-auth, py-numpy, py-protobuf, py-six, py-werkzeug, py-google-auth-oauthlib, py-tensorboard-plugin-wit, py-tensorboard-data-server
Run Dependencies:
python, py-setuptools, py-absl-py, py-markdown, py-requests, py-futures, py-grpcio, py-google-auth, py-numpy, py-protobuf, py-six, py-werkzeug, py-google-auth-oauthlib, py-tensorboard-plugin-wit, py-tensorboard-data-server
Description:
TensorBoard is a suite of web applications for inspecting and understanding your TensorFlow runs and graphs.

py-tensorboard-data-server

Homepage:
Spack package:
Versions:
0.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, rust
Run Dependencies:
python
Description:
Fast data loading for TensorBoard

py-tensorboard-plugin-wit

Homepage:
Spack package:
Versions:
1.8.1, 1.8.0, 1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
The What-If Tool makes it easy to efficiently and intuitively explore up to two models' performance on a dataset. Investigate model performances for a range of features in your dataset, optimization strategies and even manipulations to individual datapoint values. All this and more, in a visual way that requires minimal code.

py-tensorboardx

Homepage:
Spack package:
Versions:
2.1, 2.0, 1.9, 1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-protobuf, py-numpy
Run Dependencies:
python, py-six, py-protobuf, py-numpy
Description:
The purpose of this package is to let researchers use a simple interface to log events within PyTorch (and then show visualization in tensorboard). This package currently supports logging scalar, image, audio, histogram, text, embedding, and the route of back-propagation.

py-tensorflow

Homepage:
Spack package:
Versions:
2.7.0, 2.6.2, 2.6.1, 2.6.0, 2.5.0, 2.4.1, 2.4.0, 2.3.2, 2.3.1, 2.3.0, 2.2.2, 2.2.1, 2.2.0, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0, 1.15.5, 1.15.4, 1.15.3, 1.15.2, 1.15.1, 1.15.0, 1.14.0, 1.13.2, 1.13.1, 1.12.3, 1.12.2, 1.12.1, 1.12.0, 1.11.0, 1.10.1, 1.10.0, 1.9.0, 1.8.0, 1.7.1, 1.7.0, 1.6.0, 1.5.1, 1.5.0, 1.4.1, 1.4.0, 1.3.1, 1.3.0, 1.2.1, 1.2.0, 1.1.0, 1.0.1, 1.0.0, 0.12.0, 0.11.0, 0.10.0, 0.9.0, 0.8.0, 0.7.1, 0.7.0, 0.6.0
Build Dependencies:
cuda, python, bazel, swig, py-pip, py-wheel, py-setuptools, py-future, py-absl-py, py-astunparse, py-astor, py-backports-weakref, py-libclang, py-enum34, py-gast, py-google-pasta, py-h5py, hdf5, py-keras-applications, py-keras-preprocessing, py-numpy, py-opt-einsum, py-protobuf, protobuf, flatbuffers, py-tensorboard, py-termcolor, py-wrapt, py-mock, py-functools32, py-six, py-scipy, py-grpcio, py-typing-extensions, mkl, curl, cudnn, nccl, mpi
Link Dependencies:
cuda, protobuf, mkl, curl, cudnn, nccl, mpi
Run Dependencies:
python, py-wheel, py-absl-py, py-astunparse, py-astor, py-backports-weakref, py-libclang, py-enum34, py-gast, py-google-pasta, py-h5py, py-keras-applications, py-keras-preprocessing, py-numpy, py-opt-einsum, py-protobuf, flatbuffers, py-tensorboard, py-termcolor, py-wrapt, py-mock, py-functools32, py-six, py-scipy, py-grpcio, py-typing-extensions
Description:
TensorFlow is an Open Source Software Library for Machine Intelligence

py-tensorflow-estimator

Homepage:
Spack package:
Versions:
2.7.0, 2.6.0, 2.5.0, 2.4.0, 2.3.0, 2.2.0, 2.1, 2.0.0, 1.13.0
Build Dependencies:
python, py-keras, py-tensorflow, bazel, py-pip, py-wheel, py-funcsigs
Run Dependencies:
python, py-keras, py-tensorflow, py-funcsigs
Description:
TensorFlow Estimator is a high-level TensorFlow API that greatly simplifies machine learning programming.

py-tensorflow-hub

Homepage:
Spack package:
Versions:
0.12.0, 0.11.0
Build Dependencies:
python, bazel, py-pip, py-wheel, py-setuptools, py-numpy, py-protobuf
Run Dependencies:
python, py-numpy, py-protobuf
Description:
TensorFlow Hub is a library to foster the publication, discovery, and consumption of reusable parts of machine learning models.

py-tensorflow-metadata

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
python, py-pip, py-wheel, bazel, py-setuptools, py-absl-py, py-googleapis-common-protos, py-protobuf
Run Dependencies:
python, py-absl-py, py-googleapis-common-protos, py-protobuf
Description:
Library and standards for schema and statistics. TensorFlow Metadata provides standard representations for metadata that are useful when training machine learning models with TensorFlow.

py-tensorflow-probability

Homepage:
Spack package:
Versions:
0.12.1, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-numpy, py-decorator, py-tensorflow, py-gast, py-cloudpickle, py-dm-tree, bazel
Run Dependencies:
python, py-six, py-numpy, py-decorator, py-tensorflow, py-gast, py-cloudpickle, py-dm-tree
Description:
TensorFlow Probability (TFP) is a Python library built on TensorFlow that makes it easy to combine probabilistic models and deep learning on modern hardware (TPU, GPU). It's for data scientists, statisticians, ML researchers, and practitioners who want to encode domain knowledge to understand data and make predictions.

py-termcolor

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
ANSII Color formatting for output in terminal.

py-terminado

Homepage:
Spack package:
Versions:
0.12.1, 0.8.3, 0.8.2, 0.8.1, 0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-flit, py-tornado, py-ptyprocess
Run Dependencies:
python, py-tornado, py-ptyprocess
Description:
Terminals served to term.js using Tornado websockets

py-terminaltables

Homepage:
Spack package:
Versions:
3.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-colorama, py-termcolor, py-colorclass
Run Dependencies:
python, py-colorama, py-termcolor, py-colorclass
Description:
Generate simple tables in terminals from a nested list of strings.

py-tern

Homepage:
Spack package:
Versions:
main
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Tern is a software package inspection tool that can create a Software Bill of Materials (SBoM) for containers.

py-testfixtures

Homepage:
Spack package:
Versions:
6.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Testfixtures is a collection of helpers and mock objects that are useful when writing automated tests in Python.

py-testinfra

Homepage:
Spack package:
Versions:
1.18.0, 1.13.0, 1.12.0, 1.11.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib, py-pytest, py-six, py-paramiko, py-pytest-xdist
Run Dependencies:
python, py-importlib, py-pytest, py-six, py-paramiko, py-pytest-xdist
Description:
With Testinfra you can write unit tests in Python to test actual state of your servers configured by management tools like Salt, Ansible, Puppet, Chef and so on.

py-testpath

Homepage:
Spack package:
Versions:
0.6.0, 0.5.0, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-flit-core
Run Dependencies:
python
Description:
Testpath is a collection of utilities for Python code working with files and commands.

py-testrepository

Homepage:
Spack package:
Versions:
0.0.20
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-fixtures, py-python-subunit, py-testtools
Run Dependencies:
python, py-fixtures, py-python-subunit, py-testtools
Description:
A repository of test results.

py-testresources

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Testresources, a pyunit extension for managing expensive test resources.

py-testscenarios

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Testscenarios, a pyunit extension for dependency injection

py-testtools

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Extensions to the Python standard library unit testing framework.

py-tetoolkit

Homepage:
Spack package:
Versions:
2.0.3, 1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pysam, r-deseq, r-deseq2
Link Dependencies:
py-setuptools
Run Dependencies:
python, py-pysam, r-deseq, r-deseq2
Description:
TEToolkit is a software package that utilizes both unambiguously (uniquely) and ambiguously (multi-) mapped reads to perform differential enrichment analyses from high throughput sequencing experiments.

py-text-unidecode

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
text-unidecode is the most basic port of the Text::Unidecode Perl library.

py-textblob

Homepage:
Spack package:
Versions:
0.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-nltk
Run Dependencies:
python, py-nltk
Description:
TextBlob is a Python (2 and 3) library for processing textual data. It provides a simple API for diving into common natural language processing (NLP) tasks such as part-of-speech tagging, noun phrase extraction, sentiment analysis, classification, translation, and more.

py-texttable

Homepage:
Spack package:
Versions:
1.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python module for creating simple ASCII tables.

py-tfdlpack

Homepage:
Spack package:
Versions:
master, 0.1.1
Build Dependencies:
python, py-pip, py-wheel, cmake, cuda, py-setuptools, py-tensorflow
Link Dependencies:
cuda
Run Dependencies:
python, py-tensorflow
Description:
Tensorflow plugin for DLPack.

py-theano

Homepage:
Spack package:
Versions:
master, 1.0.5, 1.0.4, 1.0.2, 1.0.1, 0.8.2
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-six, blas, cudnn, py-pygpu, libgpuarray
Link Dependencies:
cuda, blas, cudnn, libgpuarray
Run Dependencies:
python, py-setuptools, py-numpy, py-scipy, py-six, py-pygpu
Description:
Optimizing compiler for evaluating mathematical expressions on CPUs and GPUs.

py-thinc

Homepage:
Spack package:
Versions:
7.4.1, 7.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-murmurhash, py-cymem, py-preshed, py-blis, py-wasabi, py-srsly, py-catalogue, py-numpy, py-plac, py-tqdm, py-pathlib
Run Dependencies:
python, py-murmurhash, py-cymem, py-preshed, py-blis, py-wasabi, py-srsly, py-catalogue, py-numpy, py-plac, py-tqdm, py-pathlib
Description:
Thinc: Practical Machine Learning for NLP in Python.

py-thirdorder

Homepage:
Spack package:
Versions:
1.1.1-8526f47
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-scipy, spglib
Run Dependencies:
python, py-numpy, py-scipy, spglib
Description:
It helps ShengBTE users create FORCE_CONSTANTS_3RD files efficiently

py-threadpoolctl

Homepage:
Spack package:
Versions:
3.0.0, 2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-flit
Run Dependencies:
python
Description:
Python helpers to limit the number of threads used in the threadpool- backed of common native libraries used for scientific computing and data science (e.g. BLAS and OpenMP).

py-tifffile

Homepage:
Spack package:
Versions:
2021.11.2, 2020.10.1, 0.12.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Read and write image data from and to TIFF files.

py-timm

Homepage:
Spack package:
Versions:
0.4.12
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch, py-torchvision
Run Dependencies:
python, py-torch, py-torchvision
Description:
(Unofficial) PyTorch Image Models.

py-tinyarray

Homepage:
Spack package:
Versions:
1.2.3, 1.2.2, 1.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Tinyarrays are similar to NumPy arrays, but optimized for small sizes. Common operations on very small arrays are to 3-7 times faster than with NumPy (with NumPy 1.6 it used to be up to 35 times), and 3 times less memory is used to store them. Tinyarrays are useful if you need many small arrays of numbers, and cannot combine them into a few large ones.

py-tokenize-rt

Homepage:
Spack package:
Versions:
4.2.1
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
A wrapper around the stdlib `tokenize` which roundtrips.

py-tokenizers

Homepage:
Spack package:
Versions:
0.10.3, 0.6.0, 0.5.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-rust, rust
Run Dependencies:
python
Description:
Fast and Customizable Tokenizers.

py-toml

Homepage:
Spack package:
Versions:
0.10.2, 0.10.0, 0.9.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A Python library for parsing and creating TOML configuration files. For more information on the TOML standard, see https://github.com/toml- lang/toml.git

py-tomli

Homepage:
Spack package:
Versions:
1.2.2, 1.2.1
Build Dependencies:
python, py-pip, py-wheel
Run Dependencies:
python
Description:
Tomli is a Python library for parsing TOML. Tomli is fully compatible with TOML v1.0.0.

py-tomli-w

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-flit-core
Run Dependencies:
python
Description:
A lil' TOML writer.

py-tomlkit

Homepage:
Spack package:
Versions:
0.7.2, 0.7.0
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-enum34, py-functools32, py-typing
Run Dependencies:
python, py-enum34, py-functools32, py-typing
Description:
Style preserving TOML library

py-tomopy

Homepage:
Spack package:
Versions:
master, 1.11.0, 1.10.4, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, cuda, opencv, cmake, ninja, py-setuptools-scm, py-setuptools-scm-git-archive, py-scikit-build, py-scikit-image, py-numpy, py-pyfftw, py-scipy, py-setuptools, py-h5py, py-six, py-pywavelets, py-dxchange, py-numexpr
Link Dependencies:
cuda, opencv
Run Dependencies:
python, py-scikit-image, py-numpy, py-pyfftw, py-scipy, py-h5py, py-six, py-pywavelets, py-dxchange, py-numexpr
Description:
TomoPy is an open-source Python package for tomographic data processing and image reconstruction.

py-toolz

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A set of utility functions for iterators, functions, and dictionaries

py-toposort

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Implements a topological sort algorithm.

py-torch

Homepage:
Spack package:
Versions:
master, 1.11.0, 1.10.2, 1.10.1, 1.10.0, 1.9.1, 1.9.0, 1.8.2, 1.8.1, 1.8.0, 1.7.1, 1.7.0, 1.6.0, 1.5.1, 1.5.0, 1.4.1, 1.3.1, 1.3.0, 1.2.0, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
cuda, python, py-pip, py-wheel, cmake, ninja, py-setuptools, py-future, py-pyyaml, py-typing, py-pybind11, py-dataclasses, py-numpy, py-protobuf, protobuf, py-typing-extensions, blas, lapack, eigen, pthreadpool, psimd, fxdiv, benchmark, cudnn, magma, nccl, numactl, llvm-openmp, valgrind, mpi, mkl
Link Dependencies:
cuda, python, py-pybind11, protobuf, blas, lapack, eigen, pthreadpool, psimd, fxdiv, benchmark, cudnn, magma, nccl, numactl, llvm-openmp, valgrind, mpi, mkl
Run Dependencies:
cuda, python, py-setuptools, py-future, py-pyyaml, py-typing, py-pybind11, py-dataclasses, py-tqdm, py-numpy, py-protobuf, py-typing-extensions
Test Dependencies:
py-hypothesis, py-six, py-psutil
Description:
Tensors and Dynamic neural networks in Python with strong GPU acceleration.

py-torch-cluster

Homepage:
Spack package:
Versions:
1.5.8, 1.5.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-scipy, py-torch
Link Dependencies:
py-torch
Run Dependencies:
python, py-scipy
Description:
This package consists of a small extension library of highly optimized graph cluster algorithms for the use in PyTorch.

py-torch-geometric

Homepage:
Spack package:
Versions:
1.6.3, 1.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-torch, py-numpy, py-tqdm, py-scipy, py-networkx, py-scikit-learn, py-numba, py-python-louvain, py-requests, py-pandas, py-rdflib, py-googledrivedownloader, py-h5py, py-ase, py-jinja2, py-torch-sparse, py-torch-scatter, py-torch-cluster, py-torch-spline-conv
Run Dependencies:
python, py-torch, py-numpy, py-tqdm, py-scipy, py-networkx, py-scikit-learn, py-numba, py-python-louvain, py-requests, py-pandas, py-rdflib, py-googledrivedownloader, py-h5py, py-ase, py-jinja2, py-torch-sparse, py-torch-scatter, py-torch-cluster, py-torch-spline-conv
Description:
PyTorch Geometric (PyG) is a geometric deep learning extension library for PyTorch. It consists of various methods for deep learning on graphs and other irregular structures, also known as geometric deep learning, from a variety of published papers. In addition, it consists of an easy- to-use mini-batch loader for many small and single giant graphs, multi gpu-support, a large number of common benchmark datasets (based on simple interfaces to create your own), and helpful transforms, both for learning on arbitrary graphs as well as on 3D meshes or point clouds.

py-torch-nvidia-apex

Homepage:
Spack package:
Versions:
master, 2020-10-19
Build Dependencies:
cuda, python, py-pip, py-wheel, py-setuptools, py-torch, py-pybind11
Link Dependencies:
cuda, py-pybind11
Run Dependencies:
python, py-torch, py-pybind11
Description:
A PyTorch Extension: Tools for easy mixed precision and distributed training in Pytorch

py-torch-scatter

Homepage:
Spack package:
Versions:
2.0.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-torch
Link Dependencies:
py-torch
Run Dependencies:
python
Description:
This package consists of a small extension library of highly optimized sparse update (scatter and segment) operations for the use in PyTorch, which are missing in the main package.

py-torch-sparse

Homepage:
Spack package:
Versions:
0.6.8, 0.6.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-scipy, py-torch, py-torch-scatter
Link Dependencies:
py-torch-scatter
Run Dependencies:
python, py-scipy, py-torch
Description:
This package consists of a small extension library of optimized sparse matrix operations with autograd support.

py-torch-spline-conv

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-torch
Link Dependencies:
py-torch
Run Dependencies:
python
Description:
This is a PyTorch implementation of the spline-based convolution operator of SplineCNN.

py-torchaudio

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, sox, py-torch
Link Dependencies:
sox
Run Dependencies:
python, py-torch
Description:
The aim of torchaudio is to apply PyTorch to the audio domain. By supporting PyTorch, torchaudio follows the same philosophy of providing strong GPU acceleration, having a focus on trainable features through the autograd system, and having consistent style (tensor names and dimension names). Therefore, it is primarily a machine learning library and not a general signal processing library. The benefits of Pytorch is be seen in torchaudio through having all the computations be through Pytorch operations which makes it easy to use and feel like a natural extension.

py-torchfile

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Mostly direct port of the torch7 Lua and C serialization implementation to Python, depending only on numpy (and the standard library: array and struct). Sharing of objects including torch.Tensors is preserved.

py-torchgeo

Homepage:
Spack package:
Versions:
main, 0.2.1, 0.2.0, 0.1.1, 0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses, py-einops, py-fiona, py-kornia, py-matplotlib, py-numpy, py-omegaconf, pil, py-pyproj, py-pytorch-lightning, py-rasterio, py-rtree, py-scikit-learn, py-segmentation-models-pytorch, py-shapely, py-timm, py-torch, py-torchmetrics, py-torchvision, libtiff
Link Dependencies:
libtiff
Run Dependencies:
python, py-dataclasses, py-einops, py-fiona, py-kornia, py-matplotlib, py-numpy, py-omegaconf, pil, py-pyproj, py-pytorch-lightning, py-rasterio, py-rtree, py-scikit-learn, py-segmentation-models-pytorch, py-shapely, py-timm, py-torch, py-torchmetrics, py-torchvision, py-h5py, py-laspy, open3d, opencv, py-pandas, py-pycocotools, py-radiant-mlhub, py-rarfile, py-scipy, py-zipfile-deflate64, py-black, py-flake8, py-isort, py-pydocstyle, py-mypy, py-nbmake, py-pytest, py-pytest-cov
Description:
TorchGeo: datasets, transforms, and models for geospatial data. TorchGeo is a PyTorch domain library, similar to torchvision, that provides datasets, transforms, samplers, and pre-trained models specific to geospatial data.

py-torchmeta

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-torch, py-torchvision, pil, py-h5py, py-tqdm, py-requests, py-ordered-set
Run Dependencies:
python, py-numpy, py-torch, py-torchvision, pil, py-h5py, py-tqdm, py-requests, py-ordered-set
Description:
A collection of extensions and data-loaders for few-shot learning & meta-learning in PyTorch. Torchmeta contains popular meta-learning benchmarks, fully compatible with both torchvision and PyTorch's DataLoader.

py-torchmetrics

Homepage:
Spack package:
Versions:
0.7.0, 0.5.1, 0.4.1, 0.3.1, 0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-torch, py-pydeprecate, py-packaging
Run Dependencies:
python, py-numpy, py-torch, py-pydeprecate, py-packaging
Description:
Machine learning metrics for distributed, scalable PyTorch applications.

py-torchsummary

Homepage:
Spack package:
Versions:
1.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-torch, py-numpy
Run Dependencies:
python, py-torch, py-numpy
Description:
Keras has a neat API to view the visualization of the model which is very helpful while debugging your network. Here is a barebone code to try and mimic the same in PyTorch. The aim is to provide information complementary to, what is not provided by print(your_model) in PyTorch.

py-torchtext

Homepage:
Spack package:
Versions:
0.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-tqdm, py-requests, py-torch, py-numpy, py-six, py-sentencepiece
Run Dependencies:
python, py-tqdm, py-requests, py-torch, py-numpy, py-six, py-sentencepiece
Description:
Text utilities and datasets for PyTorch.

py-torchvision

Homepage:
Spack package:
Versions:
main, master, 0.12.0, 0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.1, 0.10.0, 0.9.2, 0.9.1, 0.9.0, 0.8.2, 0.8.1, 0.8.0, 0.7.0, 0.6.1, 0.6.0, 0.5.0, 0.4.2, 0.4.1, 0.4.0, 0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, ninja, py-typing-extensions, py-numpy, py-requests, py-six, py-torch, pil, py-accimage, libpng, jpeg, ffmpeg
Link Dependencies:
python, py-torch, libpng, jpeg, ffmpeg
Run Dependencies:
python, py-typing-extensions, py-numpy, py-requests, py-six, py-torch, pil, py-accimage
Description:
The torchvision package consists of popular datasets, model architectures, and common image transformations for computer vision.

py-tornado

Homepage:
Spack package:
Versions:
6.1, 6.0.3, 5.1.1, 4.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-ssl-match-hostname, py-singledispatch, py-certifi, py-backports-abc, py-futures
Run Dependencies:
python, py-backports-ssl-match-hostname, py-singledispatch, py-certifi, py-backports-abc, py-futures
Description:
Tornado is a Python web framework and asynchronous networking library.

py-tox

Homepage:
Spack package:
Versions:
3.14.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-importlib-metadata, py-packaging, py-pluggy, py-py, py-six, py-virtualenv, py-toml, py-filelock
Run Dependencies:
python, py-setuptools, py-importlib-metadata, py-packaging, py-pluggy, py-py, py-six, py-virtualenv, py-toml, py-filelock
Description:
tox is a generic virtualenv management and test command line tool.

py-tpot

Homepage:
Spack package:
Versions:
0.11.7, 0.11.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-deap, py-numpy, py-scikit-learn, py-scipy, py-tqdm, py-stopit, py-pandas, py-joblib, py-update-checker, py-xgboost
Run Dependencies:
python, py-deap, py-numpy, py-scikit-learn, py-scipy, py-tqdm, py-stopit, py-pandas, py-joblib, py-update-checker, py-xgboost
Description:
A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

py-tqdm

Homepage:
Spack package:
Versions:
4.62.3, 4.59.0, 4.56.2, 4.46.0, 4.45.0, 4.36.1, 4.8.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-requests, py-ipywidgets
Run Dependencies:
python, py-setuptools, py-requests, py-ipywidgets
Description:
A Fast, Extensible Progress Meter

py-traceback2

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pbr, py-six, py-linecache2
Run Dependencies:
python, py-six, py-linecache2
Description:
Backports of the traceback module

py-traitlets

Homepage:
Spack package:
Versions:
5.1.1, 5.0.4, 4.3.3, 4.3.2, 4.3.1, 4.3.0, 4.2.2, 4.2.1, 4.2.0, 4.1.0, 4.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-ipython-genutils, py-six, py-decorator, py-enum34
Run Dependencies:
python, py-ipython-genutils, py-six, py-decorator, py-enum34
Description:
Traitlets Python config system

py-traits

Homepage:
Spack package:
Versions:
6.3.1, 6.2.0, 6.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Explicitly typed attributes for Python.

py-traitsui

Homepage:
Spack package:
Versions:
7.2.1, 6.1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-traits, py-pyface, py-six, py-wxpython, py-numpy, py-pyqt4, py-pygments, py-pyqt5, py-pyside, py-pyside2, py-shiboken2
Run Dependencies:
python, py-traits, py-pyface, py-six, py-wxpython, py-numpy, py-pyqt4, py-pygments, py-pyqt5, py-pyside, py-pyside2, py-shiboken2
Description:
The TraitsUI project contains a toolkit-independent GUI abstraction layer, which is used to support the "visualization" features of the Traits package. Thus, you can write model in terms of the Traits API and specify a GUI in terms of the primitives supplied by TraitsUI (views, items, editors, etc.), and let TraitsUI and your selected toolkit and back-end take care of the details of displaying them.

py-transforms3d

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Functions for 3D coordinate transformations.

py-treehash

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Calculates a SHA256 (or, potentially, any other hashlib supported function) "tree" hash, as used by e.g. Amazon Glacier.

py-triangle

Homepage:
Spack package:
Versions:
20200424
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, triangle, py-numpy, py-cython
Run Dependencies:
python, triangle, py-numpy
Description:
Python bindings to the triangle library

py-trojanzoo-sphinx-theme

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-sphinx, py-docutils
Run Dependencies:
python, py-sphinx, py-docutils
Description:
TrojanZoo Sphinx Theme

py-tuiview

Homepage:
Spack package:
Versions:
1.2.6, 1.1.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyqt4, py-pyqt5, py-numpy, gdal
Link Dependencies:
gdal
Run Dependencies:
python, py-pyqt4, py-pyqt5, py-numpy
Description:
TuiView is a lightweight raster GIS with powerful raster attribute table manipulation abilities.

py-tweedledum

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scikit-build, py-cmake, py-ninja, eigen, nlohmann-json
Link Dependencies:
eigen, nlohmann-json
Run Dependencies:
python
Description:
tweedledum is a library for synthesis, compilation, and optimization of quantum circuits. The library is written to be scalable up to problem sizes in which quantum circuits outperform classical ones. Also, it is meant to be used both independently and alongside established tools.

py-twine

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
python, py-pip, py-wheel, py-pkginfo, py-readme-renderer, py-requests-toolbelt, py-setuptools, py-tqdm
Run Dependencies:
python, py-pkginfo, py-readme-renderer, py-requests-toolbelt, py-setuptools, py-tqdm
Description:
Twine is a utility for publishing Python packages on PyPI.

py-twisted

Homepage:
Spack package:
Versions:
21.7.0, 15.4.0, 15.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-zope-interface, py-incremental, py-constantly, py-automat, py-hyperlink, py-attrs, py-typing-extensions
Run Dependencies:
python, py-zope-interface, py-incremental, py-constantly, py-automat, py-hyperlink, py-attrs, py-typing-extensions
Description:
An asynchronous networking framework written in Python

py-typed-ast

Homepage:
Spack package:
Versions:
1.4.3, 1.4.2, 1.4.1, 1.4.0, 1.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
A fork of Python 2 and 3 ast modules with type comment support.

py-typeguard

Homepage:
Spack package:
Versions:
2.12.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Run-time type checker for Python

py-typesentry

Homepage:
Spack package:
Versions:
0.2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-colorama
Run Dependencies:
python, py-colorama
Description:
Python library for run-time type checking for type-annotated functions.

py-typing

Homepage:
Spack package:
Versions:
3.7.4.3, 3.7.4.1, 3.6.6, 3.6.4, 3.6.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This is a backport of the standard library typing module to Python versions older than 3.6.

py-typing-extensions

Homepage:
Spack package:
Versions:
4.1.1, 3.10.0.2, 3.10.0.0, 3.7.4.3, 3.7.4, 3.7.2, 3.6.6
Build Dependencies:
python, py-pip, py-wheel, py-flit-core, py-setuptools, py-typing
Run Dependencies:
python, py-typing
Description:
The typing_extensions module contains both backports of these changes as well as experimental types that will eventually be added to the typing module, such as Protocol (see PEP 544 for details about protocols and static duck typing).

py-tzlocal

Homepage:
Spack package:
Versions:
2.0.0, 1.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytz
Run Dependencies:
python, py-pytz
Description:
tzinfo object for the local timezone.

py-ucsf-pyem

Homepage:
Spack package:
Versions:
2021-04-07
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-matplotlib, py-future, py-numba, py-seaborn, py-pandas, py-pathos, py-pyfftw, py-healpy, py-natsort
Run Dependencies:
python, py-numpy, py-scipy, py-matplotlib, py-future, py-numba, py-seaborn, py-pandas, py-pathos, py-pyfftw, py-healpy, py-natsort
Description:
UCSF pyem is a collection of Python modules and command-line utilities for electron microscopy of biological samples.

py-ucx-py

Homepage:
Spack package:
Versions:
0.16.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-psutil, py-pynvml, ucx, hwloc
Link Dependencies:
ucx, hwloc
Run Dependencies:
python, py-numpy, py-psutil, py-pynvml
Description:
UCX-Py is the Python interface for UCX, a low-level high-performance networking library. UCX and UCX-Py supports several transport methods including InfiniBand and NVLink while still using traditional networking protocols like TCP.

py-uhi

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
python, py-pip, py-wheel, py-numpy, py-typing-extensions, py-poetry-core
Run Dependencies:
python, py-numpy, py-typing-extensions
Description:
Unified Histogram Interface: tools to help library authors work with histograms

py-ujson

Homepage:
Spack package:
Versions:
4.0.2, 1.35
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Ultra fast JSON decoder and encoder written in C with Python bindings.

py-umalqurra

Homepage:
Spack package:
Versions:
0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Date Api that support Hijri Umalqurra calendar.

py-umi-tools

Homepage:
Spack package:
Versions:
1.0.0, 0.5.5, 0.5.4, 0.5.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-pandas, py-pysam, py-future, py-six, py-regex, py-scipy, py-matplotlib
Link Dependencies:
python
Run Dependencies:
python, py-numpy, py-pandas, py-pysam, py-future, py-six, py-regex, py-scipy, py-matplotlib
Description:
Tools for handling Unique Molecular Identifiers in NGS data sets

py-uncertainties

Homepage:
Spack package:
Versions:
3.1.6, 3.1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-future, py-numpy, py-sphinx
Run Dependencies:
python, py-future, py-numpy
Description:
Transparent calculations with uncertainties on the quantities involved (aka error propagation); fast calculation of derivatives

py-unicycler

Homepage:
Spack package:
Versions:
0.4.7, 0.4.6, 0.4.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, jdk, samtools, racon
Link Dependencies:
python, samtools, racon
Run Dependencies:
python, py-setuptools, spades, pilon, jdk, bowtie2, samtools, racon, blast-plus
Description:
Unicycler is an assembly pipeline for bacterial genomes. It can assemble Illumina-only read sets where it functions as a SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore) where it runs a miniasm+Racon pipeline. For the best possible assemblies, give it both Illumina reads and long reads, and it will conduct a hybrid assembly.

py-unidecode

Homepage:
Spack package:
Versions:
1.1.1, 0.04.21
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
ASCII transliterations of Unicode text

py-unittest2

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-traceback2, py-six, py-argparse
Run Dependencies:
python, py-traceback2, py-six, py-argparse
Description:
unittest2 is a backport of the new features added to the unittest testing framework in Python 2.7 and onwards.

py-unittest2py3k

Homepage:
Spack package:
Versions:
0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
unittest2 is a backport of the new features added to the unittest testing framework in Python 2.7 and 3.2. This is a Python 3 compatible version of unittest2.

py-unshare

Homepage:
Spack package:
Versions:
0.22
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python extension for Linux kernel's unshare syscall.

py-update-checker

Homepage:
Spack package:
Versions:
0.18.0, 0.17
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-requests
Run Dependencies:
python, py-requests
Description:
A python module that will check for package updates.

py-uproot

Homepage:
Spack package:
Versions:
4.1.8, 4.0.11, 4.0.10, 4.0.9, 4.0.8, 4.0.7, 4.0.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, xrootd, lz4, xxhash, zstd
Link Dependencies:
xrootd, lz4, xxhash, zstd
Run Dependencies:
python, py-numpy
Description:
ROOT I/O in pure Python and NumPy. Uproot is a reader and a writer of the ROOT file format using only Python and Numpy. Unlike the standard C++ ROOT implementation, Uproot is only an I/O library, primarily intended to stream data into machine learning libraries in Python. Unlike PyROOT and root_numpy, Uproot does not depend on C++ ROOT. Instead, it uses Numpy to cast blocks of data from the ROOT file as Numpy arrays.

py-uproot3

Homepage:
Spack package:
Versions:
3.14.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-numpy, py-awkward0, py-uproot3-methods, py-cachetools
Run Dependencies:
python, py-numpy, py-awkward0, py-uproot3-methods, py-cachetools
Description:
ROOT I/O in pure Python and Numpy. uproot is a reader and a writer of the ROOT file format using only Python and Numpy. Unlike the standard C++ ROOT implementation, uproot is only an I/O library, primarily intended to stream data into machine learning libraries in Python. Unlike PyROOT and root_numpy, uproot does not depend on C++ ROOT. Instead, it uses Numpy to cast blocks of data from the ROOT file as Numpy arrays.

py-uproot3-methods

Homepage:
Spack package:
Versions:
0.10.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-awkward0
Run Dependencies:
python, py-numpy, py-awkward0
Description:
Pythonic mix-ins for ROOT classes. This package is typically used as a dependency for uproot 3.x, to define methods on the classes that are automatically generated from ROOT files. This includes histograms (TH*) and physics objects like TLorentzVectors. The reason it's a separate library is so that we can add physics-specific functionality on a shorter timescale than we can update Uproot 3 itself, which is purely an I/O package.

py-uproot4

Homepage:
Spack package:
Versions:
master, 4.0.2, 0.1.2, 0.0.27
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, xrootd, lz4, xxhash, zstd
Link Dependencies:
xrootd, lz4, xxhash, zstd
Run Dependencies:
python, py-numpy
Description:
DEPRECATED! This package was renamed to py-uproot. ROOT I/O in pure Python and NumPy.

py-uritemplate

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Simple python library to deal with URI Templates.

py-urllib3

Homepage:
Spack package:
Versions:
1.26.6, 1.25.9, 1.25.6, 1.25.3, 1.24.3, 1.21.1, 1.20, 1.14
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyopenssl, py-cryptography, py-idna, py-certifi, py-ipaddress, py-pysocks, py-brotlipy
Link Dependencies:
py-pyopenssl, py-cryptography, py-idna, py-certifi, py-ipaddress, py-pysocks, py-brotlipy
Run Dependencies:
python
Description:
HTTP library with thread-safe connection pooling, file post, and more.

py-urwid

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A full-featured console UI library

py-us

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jellyfish
Run Dependencies:
python, py-jellyfish
Description:
US state meta information and other fun stuff.

py-usgs

Homepage:
Spack package:
Versions:
0.2.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-click, py-requests, py-requests-futures
Run Dependencies:
python, py-click, py-requests, py-requests-futures
Description:
Client library for interfacing with USGS datasets

py-utils

Homepage:
Spack package:
Versions:
1.0.1, 0.8.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Useful, oft-repeated things for Python

py-uvloop

Homepage:
Spack package:
Versions:
0.14.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
uvloop is a fast, drop-in replacement of the built-in asyncio event

py-uvw

Homepage:
Spack package:
Versions:
master, 0.4.0, 0.3.2, 0.3.1, 0.0.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-mpi4py
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
UVW is a small utility library to write VTK files from data contained in Numpy arrays.

py-uwsgi

Homepage:
Spack package:
Versions:
2.0.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Web Application framework for low overhead web services

py-vcrpy

Homepage:
Spack package:
Versions:
4.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-wrapt, py-six, py-yarl
Run Dependencies:
python, py-pyyaml, py-wrapt, py-six, py-yarl
Description:
Automatically mock your HTTP interactions to simplify and speed up testing.

py-vcstool

Homepage:
Spack package:
Versions:
0.2.15
Build Dependencies:
python, py-pip, py-wheel, py-pyyaml, py-setuptools, py-argparse
Run Dependencies:
python, py-pyyaml, py-setuptools, py-argparse
Description:
vcstool enables batch commands on multiple different vcs repositories. Currently it supports git, hg, svn and bzr.

py-vcstools

Homepage:
Spack package:
Versions:
0.1.42
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-python-dateutil
Run Dependencies:
python, py-pyyaml, py-python-dateutil
Description:
VCS/SCM source control library for svn, git, hg, and bzr.

py-vcversioner

Homepage:
Spack package:
Versions:
2.16.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Vcversioner: Take version numbers from version control.

py-vector

Homepage:
Spack package:
Versions:
0.8.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-numpy, py-packaging, py-importlib-metadata, py-typing-extensions
Run Dependencies:
python, py-numpy, py-packaging, py-importlib-metadata, py-typing-extensions
Description:
Vector classes and utilities

py-vector-quantize-pytorch

Homepage:
Spack package:
Versions:
0.3.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-einops, py-torch
Run Dependencies:
python, py-einops, py-torch
Description:
A vector quantization library originally transcribed from Deepmind's tensorflow implementation, made conveniently into a package. It uses exponential moving averages to update the dictionary.

py-vermin

Homepage:
Spack package:
Versions:
1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0, 1.1.1, 1.1.0, 1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.10.5, 0.10.4, 0.10.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Concurrently detect the minimum Python versions needed to run code.

py-versioneer

Homepage:
Spack package:
Versions:
0.18
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Versioneer is a tool to automatically update version strings by asking your version-control system about the current tree.

py-vine

Homepage:
Spack package:
Versions:
5.0.0, 1.3.0, 1.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Promises, promises, promises.

py-virtualenv

Homepage:
Spack package:
Versions:
20.10.0, 16.7.6, 16.4.1, 16.0.0, 15.1.0, 15.0.1, 13.0.1, 1.11.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-backports-entry-points-selectable, py-distlib, py-filelock, py-platformdirs, py-six, py-importlib-metadata, py-importlib-resources, py-pathlib2
Run Dependencies:
python, py-setuptools, py-setuptools-scm, py-backports-entry-points-selectable, py-distlib, py-filelock, py-platformdirs, py-six, py-importlib-metadata, py-importlib-resources, py-pathlib2
Description:
virtualenv is a tool to create isolated Python environments.

py-virtualenv-clone

Homepage:
Spack package:
Versions:
0.5.7, 0.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
A script for cloning a non-relocatable virtualenv.

py-virtualenvwrapper

Homepage:
Spack package:
Versions:
4.8.4, 4.8.2
Build Dependencies:
python, py-pip, py-wheel, py-pbr, py-virtualenv, py-virtualenv-clone, py-stevedore, py-setuptools
Link Dependencies:
python
Run Dependencies:
python, py-virtualenv, py-virtualenv-clone, py-stevedore, py-setuptools
Description:
virtualenvwrapper is a set of extensions to Ian Bicking's virtualenv tool. The extensions include wrappers for creating and deleting virtual environments and otherwise managing your development workflow, making it easier to work on more than one project at a time without introducing conflicts in their dependencies.

py-visdom

Homepage:
Spack package:
Versions:
0.1.8.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy, py-requests, py-tornado, py-pyzmq, py-six, py-jsonpatch, py-websocket-client, py-torch, pil, py-torchfile
Run Dependencies:
python, py-numpy, py-scipy, py-requests, py-tornado, py-pyzmq, py-six, py-jsonpatch, py-websocket-client, py-torch, pil, py-torchfile
Description:
Visdom aims to facilitate visualization of (remote) data with an emphasis on supporting scientific experimentation.

py-voluptuous

Homepage:
Spack package:
Versions:
0.11.7, 0.11.6, 0.11.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Voluptous, despite the name, is a Python data validation library.

py-vsc-base

Homepage:
Spack package:
Versions:
2.5.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Common Python libraries tools created by HPC-UGent

py-vsc-install

Homepage:
Spack package:
Versions:
0.10.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Shared setuptools functions and classes for Python libraries developed by HPC-UGent.

py-vsts

Homepage:
Spack package:
Versions:
0.1.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest
Run Dependencies:
python, py-msrest
Description:
Python wrapper around the VSTS APIs.

py-vsts-cd-manager

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-msrest, py-mock
Run Dependencies:
python, py-msrest, py-mock
Description:
Python wrapper around some of the VSTS APIs.

py-walinuxagent

Homepage:
Spack package:
Versions:
2.2.52, 2.2.50
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyasn1, py-distro
Run Dependencies:
python, py-pyasn1, py-distro
Description:
Microsoft Azure Linux Guest Agent.

py-wand

Homepage:
Spack package:
Versions:
0.5.6, 0.4.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, imagemagick, py-sphinx
Link Dependencies:
imagemagick
Run Dependencies:
python
Description:
Wand is a ctypes-based simple ImageMagick binding for Python.

py-warlock

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-jsonschema, py-jsonpatch, py-six
Run Dependencies:
python, py-jsonschema, py-jsonpatch, py-six
Description:
Self-validating Python objects using JSON schema

py-warpx

Homepage:
Spack package:
Versions:
develop, 22.05, 22.04, 22.03, 22.02, 22.01, 21.12, 21.11, 21.10, 21.09, 21.08, 21.07, 21.06, 21.05, 21.04
Build Dependencies:
python, py-pip, py-wheel, warpx, py-numpy, py-mpi4py, py-periodictable, py-picmistandard, py-setuptools
Link Dependencies:
warpx
Run Dependencies:
python, py-numpy, py-mpi4py, py-periodictable, py-picmistandard
Description:
WarpX is an advanced electromagnetic Particle-In-Cell code. It supports many features including Perfectly-Matched Layers (PML) and mesh refinement. In addition, WarpX is a highly-parallel and highly-optimized code and features hybrid OpenMP/MPI parallelization, advanced vectorization techniques and load balancing capabilities. These are the Python bindings of WarpX with PICMI input support. See the C++ 'warpx' package for the WarpX application and library.

py-wasabi

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
wasabi: A lightweight console printing and formatting toolkit.

py-watchdog

Homepage:
Spack package:
Versions:
2.1.6, 0.10.3, 0.10.2, 0.10.1, 0.10.0, 0.9.0, 0.8.3, 0.8.2, 0.8.1, 0.8.0, 0.7.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-argh, py-pathtools
Run Dependencies:
python, py-pyyaml, py-argh, py-pathtools
Description:
Python library and shell utilities to monitor filesystem events.

py-wcsaxes

Homepage:
Spack package:
Versions:
0.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-matplotlib, py-astropy
Run Dependencies:
python, py-numpy, py-matplotlib, py-astropy
Description:
WCSAxes is a framework for making plots of Astronomical data in Matplotlib.

py-wcwidth

Homepage:
Spack package:
Versions:
0.2.5, 0.1.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-backports-functools-lru-cache
Link Dependencies:
py-backports-functools-lru-cache
Run Dependencies:
python
Description:
Measures number of Terminal column cells of wide-character codes

py-weave

Homepage:
Spack package:
Versions:
0.17.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy
Run Dependencies:
python, py-numpy
Description:
Weave provides tools for including C/C++ code within Python code. Weave is the stand-alone version of the now-removed SciPy submodule ``scipy.weave``. It is Python 2.x only, and is provided for users that need new versions of SciPy but have existing code that still depends on ``scipy.weave``. For new code, users are recommended to use Cython.

py-webargs

Homepage:
Spack package:
Versions:
8.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-marshmallow, py-packaging
Run Dependencies:
python, py-marshmallow, py-packaging
Description:
Python library for parsing and validating HTTP request objects, with built-in support for popular web frameworks, including Flask, Django, Bottle, Tornado, Pyramid, Falcon, and aiohttp.

py-webencodings

Homepage:
Spack package:
Versions:
0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This is a Python implementation of the WHATWG Encoding standard.

py-webkit-server

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
a Webkit-based, headless web client

py-webob

Homepage:
Spack package:
Versions:
1.8.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
WebOb provides objects for HTTP requests and responses.

py-websocket-client

Homepage:
Spack package:
Versions:
1.2.1, 0.57.0, 0.56.0, 0.48.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-six, py-backports-ssl-match-hostname, py-argparse
Run Dependencies:
python, py-six, py-backports-ssl-match-hostname, py-argparse
Description:
WebSocket client for Python. hybi13 is supported.

py-websockets

Homepage:
Spack package:
Versions:
10.1, 8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
websockets is a library for building WebSocket servers and clients in Python with a focus on correctness and simplicity.

py-werkzeug

Homepage:
Spack package:
Versions:
2.0.2, 0.16.0, 0.15.6, 0.15.5, 0.15.4, 0.15.3, 0.15.2, 0.15.1, 0.15.0, 0.11.15, 0.11.11
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses
Run Dependencies:
python, py-dataclasses
Description:
The Swiss Army knife of Python web development

py-wget

Homepage:
Spack package:
Versions:
3.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
pure python download utility Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

py-whatshap

Homepage:
Spack package:
Versions:
0.17
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython
Run Dependencies:
python, py-cython, py-pysam, py-xopen, py-pyvcf, py-pyfaidx, py-networkx
Description:
WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly.

py-wheel

Homepage:
Spack package:
Versions:
0.37.0, 0.36.2, 0.35.1, 0.34.2, 0.33.6, 0.33.4, 0.33.1, 0.32.3, 0.29.0, 0.26.0
Build Dependencies:
python, py-pip
Run Dependencies:
python
Description:
A built-package format for Python.

py-whichcraft

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Cross-platform cross-python shutil.which functionality.

py-whoosh

Homepage:
Spack package:
Versions:
2.7.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Fast, pure-Python full text indexing, search, and spell checking library.

py-widgetsnbextension

Homepage:
Spack package:
Versions:
3.6.0, 3.5.1, 3.4.2, 3.4.0, 3.3.0, 1.2.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-notebook
Run Dependencies:
python, py-notebook
Description:
IPython HTML widgets for Jupyter

py-wincertstore

Homepage:
Spack package:
Versions:
0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
wincertstore provides an interface to access Windows' CA and CRL certificates. It uses ctypes and Windows's sytem cert store API through crypt32.dll.

py-word2number

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
This is a Python module to convert number words (eg. twenty one) to numeric digits (21). It works for positive numbers upto the range of 999,999,999,999 (i.e. billions).

py-wordcloud

Homepage:
Spack package:
Versions:
1.8.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, pil, py-matplotlib
Run Dependencies:
python, py-numpy, pil, py-matplotlib
Description:
A little word cloud generator in Python.

py-workload-automation

Homepage:
Spack package:
Versions:
3.2, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.0, 2.7.0, 2.6.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-python-dateutil, py-pexpect, py-pyserial, py-colorama, py-pyyaml, py-requests, py-wrapt, py-pandas, py-future, py-louie, py-devlib
Run Dependencies:
python, py-python-dateutil, py-pexpect, py-pyserial, py-colorama, py-pyyaml, py-requests, py-wrapt, py-pandas, py-future, py-louie, py-devlib
Description:
Workload Automation (WA) is a framework for executing workloads and collecting measurements on Android and Linux devices.

py-wradlib

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-matplotlib, py-scipy, py-h5py, py-netcdf4, py-xarray, py-xmltodict, py-semver, py-deprecation, py-requests, gdal
Run Dependencies:
python, py-numpy, py-matplotlib, py-scipy, py-h5py, py-netcdf4, py-xarray, py-xmltodict, py-semver, py-deprecation, py-requests, gdal
Description:
wradlib is designed to assist you in the most important steps of processing weather radar data. These may include: reading common data formats, georeferencing, converting reflectivity to rainfall intensity, identifying and correcting typical error sources (such as clutter or attenuation) and visualising the data.

py-wrapt

Homepage:
Spack package:
Versions:
1.13.3, 1.12.1, 1.11.2, 1.11.1, 1.10.10
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Module for decorators, wrappers and monkey patching.

py-wsproto

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-dataclasses, py-h11
Run Dependencies:
python, py-dataclasses, py-h11
Description:
This repository contains a pure-Python implementation of a WebSocket protocol stack. It's written from the ground up to be embeddable in whatever program you choose to use, ensuring that you can communicate via WebSockets, as defined in RFC6455, regardless of your programming paradigm.

py-wstool

Homepage:
Spack package:
Versions:
0.1.17
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-vcstools, py-pyyaml
Run Dependencies:
python, py-vcstools, py-pyyaml
Description:
A tool for managing a workspace of multiple heterogenous SCM repositories.

py-wub

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
python, py-pip, py-wheel, py-six, py-pytest, py-pycmd, py-biopython, py-numpy, py-matplotlib, py-seaborn, py-editdistance, py-pandas, py-pysam, py-tqdm, py-statsmodels, py-setuptools
Run Dependencies:
python, py-six, py-pytest, py-pycmd, py-biopython, py-numpy, py-matplotlib, py-seaborn, py-editdistance, py-pandas, py-pysam, py-tqdm, py-statsmodels
Description:
Bioinformatics tools and a software library developed by the Oxford Nanopore Technologies Applications group.

py-wurlitzer

Homepage:
Spack package:
Versions:
3.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Capture C-level stdout/stderr pipes in Python via os.dup2.

py-ww

Homepage:
Spack package:
Versions:
0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pytest-runner, py-chardet, py-formatizer, py-future, py-six
Run Dependencies:
python, py-chardet, py-formatizer, py-future, py-six
Description:
Wrappers for Python builtins with higher-level APIs.

py-wxmplot

Homepage:
Spack package:
Versions:
0.9.38
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-numpy, py-six, py-matplotlib, py-wxpython
Run Dependencies:
python, py-numpy, py-six, py-matplotlib, py-wxpython
Description:
wxPython plotting widgets using matplotlib.

py-wxpython

Homepage:
Spack package:
Versions:
4.1.1, 4.0.6
Build Dependencies:
python, py-pip, py-wheel, wxwidgets, py-setuptools, py-pathlib2, py-numpy, pil, py-six
Link Dependencies:
wxwidgets
Run Dependencies:
python, py-numpy, pil, py-six
Description:
Cross platform GUI toolkit for Python.

py-x21

Homepage:
Spack package:
Versions:
0.2.6-py3.10, 0.2.6-py3.9, 0.2.6-py3.8, 0.2.6-py3.7
Build Dependencies:
python, py-pip, py-wheel, py-pynacl, py-setuptools, py-tomli, py-tomli-w
Run Dependencies:
python, py-pynacl, py-setuptools, py-tomli, py-tomli-w
Description:
Used for unpacking this author's obfuscated libraries

py-xarray

Homepage:
Spack package:
Versions:
2022.3.0, 0.18.2, 0.17.0, 0.16.2, 0.14.0, 0.13.0, 0.12.0, 0.11.0, 0.9.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-setuptools-scm-git-archive, py-numpy, py-pandas, py-packaging, py-netcdf4, py-h5netcdf, py-scipy, py-pydap, py-zarr, py-fsspec, py-cftime, py-rasterio, py-cfgrib, py-pooch, py-dask
Run Dependencies:
python, py-setuptools, py-numpy, py-pandas, py-packaging, py-netcdf4, py-h5netcdf, py-scipy, py-pydap, py-zarr, py-fsspec, py-cftime, py-rasterio, py-cfgrib, py-pooch, py-dask
Description:
N-D labeled arrays and datasets in Python

py-xattr

Homepage:
Spack package:
Versions:
master, 0.9.6
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
A python interface to access extended file attributes, sans libattr dependency.

py-xdot

Homepage:
Spack package:
Versions:
master, 1.2, 1.0, 0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pygobject, py-pycairo, pango, atk, gdk-pixbuf, gtkplus, py-numpy
Run Dependencies:
python, py-setuptools, py-pygobject, py-pycairo, pango, atk, gdk-pixbuf, gtkplus, py-numpy
Description:
xdot.py is an interactive viewer for graphs written in Graphviz's dot language.

py-xenv

Homepage:
Spack package:
Versions:
develop, 1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Helpers to work with the environment in a platform independent way.

py-xgboost

Homepage:
Spack package:
Versions:
1.5.2, 1.3.3
Build Dependencies:
python, py-pip, py-wheel, xgboost, py-setuptools, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-dask, py-distributed, py-graphviz, py-matplotlib
Link Dependencies:
xgboost
Run Dependencies:
python, py-numpy, py-scipy, py-pandas, py-scikit-learn, py-dask, py-distributed, py-graphviz, py-matplotlib
Description:
XGBoost is an optimized distributed gradient boosting library designed to be highly efficient, flexible and portable.

py-xlrd

Homepage:
Spack package:
Versions:
2.0.1, 0.9.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library for developers to extract data from Microsoft Excel (tm) spreadsheet files

py-xlsxwriter

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
XlsxWriter is a Python module for writing files in the Excel 2007+ XLSX file format.

py-xlwt

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Library to create spreadsheet files compatible with MS Excel 97/2000/XP/2003 XLS files, on any platform, with Python 2.6, 2.7, 3.3+.

py-xmlrunner

Homepage:
Spack package:
Versions:
1.7.7
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-unittest2
Run Dependencies:
python, py-unittest2
Description:
PyUnit-based test runner with JUnit like XML reporting.

py-xmltodict

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
xmltodict is a Python module that makes working with XML feel like you are working with JSON.

py-xonsh

Homepage:
Spack package:
Versions:
0.11.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python-powered, cross-platform, Unix-gazing shell language and command prompt.

py-xopen

Homepage:
Spack package:
Versions:
1.0.1, 0.9.0, 0.8.4, 0.8.2, 0.5.0, 0.1.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-bz2file
Run Dependencies:
python, py-bz2file
Description:
This small Python module provides a xopen function that works like the built-in open function, but can also deal with compressed files. Supported compression formats are gzip, bzip2 and xz. They are automatically recognized by their file extensions .gz, .bz2 or .xz.

py-xpyb

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
gnuconfig, python, libxcb, xcb-proto
Link Dependencies:
libxcb, xcb-proto
Run Dependencies:
python
Description:
xpyb provides a Python binding to the X Window System protocol via libxcb.

py-xrootdpyfs

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-fs, xrootd
Run Dependencies:
python, py-fs, xrootd
Description:
XRootDPyFS is a PyFilesystem interface to XRootD.

py-xvfbwrapper

Homepage:
Spack package:
Versions:
0.2.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
run headless display inside X virtual framebuffer (Xvfb)

py-xxhash

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, xxhash
Link Dependencies:
xxhash
Run Dependencies:
python
Description:
xxhash is a Python binding for the xxHash library by Yann Collet.

py-yacs

Homepage:
Spack package:
Versions:
0.1.8
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml
Run Dependencies:
python, py-pyyaml
Description:
YACS was created as a lightweight library to define and manage system configurations, such as those commonly found in software designed for scientific experimentation.

py-yahmm

Homepage:
Spack package:
Versions:
1.1.3, 1.1.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-numpy, py-scipy, py-matplotlib, py-networkx
Run Dependencies:
python, py-cython, py-numpy, py-scipy, py-matplotlib, py-networkx
Description:
YAHMM is a HMM package for Python, implemented in Cython for speed.

py-yajl

Homepage:
Spack package:
Versions:
0.3.5
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Python bindings for the Yajl JSON encoder/decoder library.

py-yamlreader

Homepage:
Spack package:
Versions:
3.0.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-pyyaml, py-six
Run Dependencies:
python, py-setuptools, py-pyyaml, py-six
Description:
Yamlreader merges YAML data from a directory, a list of files or a file glob.

py-yapf

Homepage:
Spack package:
Versions:
0.30.0, 0.29.0, 0.2.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Yet Another Python Formatter

py-yarl

Homepage:
Spack package:
Versions:
1.7.2, 1.4.2, 1.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-cython, py-multidict, py-idna, py-typing-extensions
Run Dependencies:
python, py-multidict, py-idna, py-typing-extensions
Description:
The module provides handy URL class for URL parsing and changing.

py-yaspin

Homepage:
Spack package:
Versions:
2.1.0
Build Dependencies:
python, py-pip, py-wheel, py-poetry-core, py-termcolor, py-dataclasses
Run Dependencies:
python, py-termcolor, py-dataclasses
Description:
Yet Another Terminal Spinner

py-yolk3k

Homepage:
Spack package:
Versions:
0.9
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Yolk is a Python tool for obtaining information about installed Python packages and querying packages avilable on PyPI (Python Package Index). Yolk3k is a fork of the original yolk. `yolk3k` add Python 3 support and adds additional features.

py-youtube-dl

Homepage:
Spack package:
Versions:
2020.3.24
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools, ffmpeg
Description:
Command-line program to download videos from YouTube.com and other video sites.

py-yq

Homepage:
Spack package:
Versions:
2.12.2
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-toml, py-pyyaml, py-argcomplete, py-xmltodict
Run Dependencies:
python, py-setuptools, py-toml, py-pyyaml, py-argcomplete, py-xmltodict
Description:
yq takes YAML input, converts it to JSON, and pipes it to jq

py-yt

Homepage:
Spack package:
Versions:
develop-4.0, develop, 3.6.1, 3.6.0, 3.5.1, 3.5.0, 3.4.1, 3.4.0, 3.3.5, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.3, 3.2.2
Build Dependencies:
python, py-pip, py-wheel, py-astropy, py-cython, py-h5py, py-ipython, py-matplotlib, py-numpy, py-scipy, py-setuptools, py-sympy, rockstar
Run Dependencies:
python, py-astropy, py-cython, py-h5py, py-ipython, py-matplotlib, py-numpy, py-scipy, py-setuptools, py-sympy, rockstar
Description:
Volumetric Data Analysis yt is a python package for analyzing and visualizing volumetric, multi-resolution data from astrophysical simulations, radio telescopes, and a burgeoning interdisciplinary community.

py-ytopt

Homepage:
Spack package:
Versions:
0.0.3, 0.0.2, 0.0.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-scikit-learn, py-dh-scikit-optimize, py-configspace, py-numpy, py-ytopt-autotune, py-joblib, py-deap, py-tqdm, py-ray, py-mpi4py, py-sdv
Run Dependencies:
python, py-scikit-learn, py-dh-scikit-optimize, py-configspace, py-numpy, py-ytopt-autotune, py-joblib, py-deap, py-tqdm, py-ray, py-mpi4py, py-sdv
Description:
Ytopt package implements search using Random Forest (SuRF), an autotuning search method developed within Y-Tune ECP project.

py-ytopt-autotune

Homepage:
Spack package:
Versions:
master, 1.1.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
Common interface for autotuning search space and method definition.

py-zarr

Homepage:
Spack package:
Versions:
2.10.2, 2.6.1, 2.5.0, 2.4.0, 2.3.2
Build Dependencies:
python, py-pip, py-wheel, py-asciitree, py-fasteners, py-msgpack, py-setuptools, py-setuptools-scm, py-numcodecs, py-numpy, py-scandir
Run Dependencies:
python, py-asciitree, py-fasteners, py-msgpack, py-numcodecs, py-numpy, py-scandir
Description:
Zarr is a Python package providing an implementation of chunked, compressed, N-dimensional arrays.

py-zc-buildout

Homepage:
Spack package:
Versions:
2.13.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
System for managing development buildouts

py-zc-lockfile

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Basic inter-process locks

py-zict

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-heapdict
Run Dependencies:
python, py-heapdict
Description:
Mutable mapping tools

py-zipfile-deflate64

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm
Run Dependencies:
python
Description:
Extract Deflate64 ZIP archives with Python's zipfile API.

py-zipp

Homepage:
Spack package:
Versions:
3.6.0, 0.6.0, 0.5.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-setuptools-scm, py-more-itertools
Run Dependencies:
python, py-more-itertools
Description:
Backport of pathlib-compatible object wrapper for zip files.

py-zope-event

Homepage:
Spack package:
Versions:
4.5.0, 4.3.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
Very basic event publishing system.

py-zope-interface

Homepage:
Spack package:
Versions:
5.4.0, 5.1.0, 4.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python, py-setuptools
Description:
This package provides an implementation of "object interfaces" for Python. Interfaces are a mechanism for labeling objects as conforming to a given API or contract. So, this package can be considered as implementation of the Design By Contract methodology support in Python.

py-zxcvbn

Homepage:
Spack package:
Versions:
4.4.28, 4.4.27, 4.4.26, 4.4.25
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Run Dependencies:
python
Description:
A realistic password strength estimator. This is a Python implementation of the library created by the team at Dropbox.

pygmo

Homepage:
Spack package:
Versions:
master, 2.18.0
Build Dependencies:
cmake, python, pagmo2, boost, py-numpy, py-cloudpickle, py-pybind11
Link Dependencies:
pagmo2, boost
Run Dependencies:
python, py-numpy, py-cloudpickle
Description:
Parallel Global Multiobjective Optimizer (and its Python alter ego PyGMO) is a C++ / Python platform to perform parallel computations of optimisation tasks (global and local) via the asynchronous generalized island model.

pythia6

Homepage:
Spack package:
Versions:
6.4.28
Build Dependencies:
cmake
Description:
PYTHIA is a program for the generation of high-energy physics events, i.e. for the description of collisions at high energies between elementary particles such as e+, e-, p and pbar in various combinations. PYTHIA6 is a Fortran package which is no longer maintained: new prospective users should use Pythia8 instead. This recipe includes patches required to interoperate with Root.

pythia8

Homepage:
Spack package:
Versions:
8.306, 8.304, 8.303, 8.302, 8.301, 8.244, 8.240, 8.235, 8.230, 8.212
Build Dependencies:
gnuconfig, rsync, hepmc, hepmc3, root, evtgen, fastjet, lhapdf, boost, rivet, python, madgraph5amc, openmpi, mpich, hdf5, highfive
Link Dependencies:
hepmc, hepmc3, root, evtgen, fastjet, lhapdf, boost, rivet, python, madgraph5amc, openmpi, mpich, hdf5, highfive
Run Dependencies:
python
Description:
The Pythia program is a standard tool for the generation of events in high-energy collisions, comprising a coherent set of physics models for the evolution from a few-body hard process to a complex multiparticle final state.

python

Homepage:
Spack package:
Versions:
3.10.4, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.9.12, 3.9.11, 3.9.10, 3.9.9, 3.9.8, 3.9.7, 3.9.6, 3.9.5, 3.9.4, 3.9.3, 3.9.2, 3.9.1, 3.9.0, 3.8.13, 3.8.12, 3.8.11, 3.8.10, 3.8.9, 3.8.8, 3.8.7, 3.8.6, 3.8.5, 3.8.4, 3.8.3, 3.8.2, 3.8.1, 3.8.0, 3.7.13, 3.7.12, 3.7.11, 3.7.10, 3.7.9, 3.7.8, 3.7.7, 3.7.6, 3.7.5, 3.7.4, 3.7.3, 3.7.2, 3.7.1, 3.7.0, 3.6.15, 3.6.14, 3.6.13, 3.6.12, 3.6.11, 3.6.10, 3.6.9, 3.6.8, 3.6.7, 3.6.6, 3.6.5, 3.6.4, 3.6.3, 3.6.2, 3.6.1, 3.6.0, 3.5.10, 3.5.9, 3.5.8, 3.5.7, 3.5.6, 3.5.5, 3.5.4, 3.5.3, 3.5.2, 3.5.1, 3.5.0, 3.4.10, 3.4.3, 3.3.6, 3.2.6, 3.1.5, 2.7.18, 2.7.17, 2.7.16, 2.7.15, 2.7.14, 2.7.13, 2.7.12, 2.7.11, 2.7.10, 2.7.9, 2.7.8
Build Dependencies:
pkgconfig, gettext, readline, ncurses, openssl, sqlite, gdbm, libnsl, zlib, bzip2, xz, expat, libffi, tk, tcl, uuid, tix
Link Dependencies:
gettext, readline, ncurses, openssl, sqlite, gdbm, libnsl, zlib, bzip2, xz, expat, libffi, tk, tcl, uuid, tix
Description:
The Python programming language.

q-e-sirius

Homepage:
Spack package:
Versions:
develop-ristretto, 6.7-rc1-sirius
Build Dependencies:
cmake, sirius, mpi, scalapack, elpa, libxc, hdf5, git, pkgconfig
Link Dependencies:
sirius, mpi, scalapack, elpa, libxc, hdf5
Description:
SIRIUS enabled fork of QuantumESPRESSO.

qbank

Homepage:
Spack package:
Versions:
2.10.4
Build Dependencies:
openssl, perl, perl-dbi
Link Dependencies:
openssl
Run Dependencies:
perl, perl-dbi
Description:
QBank is a unique dynamic reservation-based allocation management system that manages the utilization of computational resources in a multi- project environment. It is used in conjunction with a resource management system allowing an organization to guarantee greater fairness and enforce mission priorities by associating a charge with the use of computational resources and allocating resource credits which limit how much of the resources may be used at what time and by whom. It tracks resource utilization and allows for insightful planning.

qbox

Homepage:
Spack package:
Versions:
1.63.7, 1.63.5, 1.63.4, 1.63.2, 1.63.0, 1.62.3, 1.60.9, 1.60.4, 1.60.0, 1.58.0, 1.56.2, 1.54.4, 1.54.2, 1.52.3, 1.52.2, 1.50.4, 1.50.2, 1.50.1, 1.47.0, 1.45.3, 1.45.1, 1.45.0, 1.44.0
Build Dependencies:
mpi, blas, scalapack, fftw, xerces-c
Link Dependencies:
mpi, blas, scalapack, fftw, xerces-c
Run Dependencies:
python, gnuplot
Description:
Qbox is a C++/MPI scalable parallel implementation of first-principles molecular dynamics (FPMD) based on the plane-wave, pseudopotential formalism. Qbox is designed for operation on large parallel computers.

qca

Homepage:
Spack package:
Versions:
2.3.0, 2.2.90, 2.2.1, 2.1.3
Build Dependencies:
cmake, qt
Link Dependencies:
qt
Description:
Taking a hint from the similarly-named Java Cryptography Architecture, QCA aims to provide a straightforward and cross-platform crypto API, using Qt datatypes and conventions. QCA separates the API from the implementation, using plugins known as Providers. The advantage of this model is to allow applications to avoid linking to or explicitly depending on any particular cryptographic library. This allows one to easily change or upgrade crypto implementations without even needing to recompile the application! QCA should work everywhere Qt does, including Windows/Unix/MacOSX.

qcachegrind

Homepage:
Spack package:
Versions:
20.12.2, 20.08.0
Build Dependencies:
qt
Link Dependencies:
qt
Run Dependencies:
graphviz
Description:
{K,Q}Cachegrind is a KDE/Qt GUI to visualize profiling data. It's mainly used as visualization frontend for data measured by Cachegrind/Callgrind tools from the Valgrind package, but there are converters for other measurement tools available. Also provides the command-line tool 'cgview'

qd

Homepage:
Spack package:
Versions:
2.3.13
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
C++/Fortran-90 double-double and quad-double package. With modifications for easier integration with NJet. see http://crd- legacy.lbl.gov/~dhbailey/mpdist/ for authors page

qemu

Homepage:
Spack package:
Versions:
4.1.1, 4.1.0, 4.0.1, 4.0.0, 3.1.1.1, 3.1.1, 3.1.0, 3.0.1, 3.0.0, 2.12.1, 2.12.0, 2.11.2, 2.11.1, 2.11.0, 2.10.2, 2.10.1, 2.10.0, 2.9.1, 2.9.0, 2.8.1.1, 2.8.1, 2.8.0, 2.7.1, 2.7.0, 2.6.2, 2.6.1, 2.6.0, 2.5.1.1, 2.5.1, 2.5.0, 2.4.1, 2.4.0.1, 2.4.0, 2.3.1, 2.3.0, 2.2.1, 2.2.0, 2.1.3, 2.1.2, 2.1.1, 2.1.0, 2.0.2, 2.0.0, 1.7.2, 1.7.0, 1.6.2, 1.6.1, 1.6.0, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.2, 1.4.1, 1.4.0, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0, 1.1.2, 1.1.1, 1.1.0-1, 1.1.0, 1.0.1, 1.0, 0.15.1, 0.15.0, 0.14.1, 0.14.0, 0.13.0, 0.12.4, 0.12.3, 0.12.2, 0.12.1, 0.12.0, 0.11.0, 0.10.6, 0.10.5, 0.10.4, 0.10.3, 0.10.2, 0.10.1, 0.10.0, 0.9.1
Build Dependencies:
gnuconfig, glib, pixman, pkgconfig
Link Dependencies:
glib, pixman
Description:
QEMU is a generic and open source machine emulator and virtualizer.

qgis

Homepage:
Spack package:
Versions:
3.22.0, 3.18.2, 3.16.12, 3.16.5, 3.14.16, 3.14.0, 3.12.3, 3.12.2, 3.12.1, 3.12.0, 3.10.10, 3.10.7, 3.10.6, 3.10.5, 3.10.4, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.8.3, 3.8.2, 3.8.1, 3.4.15, 3.4.14
Build Dependencies:
cmake, exiv2, expat, gdal, geos, libspatialindex, libspatialite, libzip, libtasn1, proj, py-psycopg2, py-pyqt4, py-pyqt5, py-requests, python, qca, qjson, qscintilla, qt, qtkeychain, qwt, qwtpolar, sqlite, protobuf, postgresql, gsl, grass, netcdf-c, flex, bison, pkgconfig
Link Dependencies:
exiv2, expat, gdal, geos, libspatialindex, libspatialite, libzip, libtasn1, proj, py-pyqt4, py-pyqt5, qca, qjson, qscintilla, qt, qtkeychain, qwt, qwtpolar, sqlite, protobuf, postgresql, gsl, grass, netcdf-c
Run Dependencies:
gdal, py-psycopg2, py-requests, python, py-pyyaml, py-owslib, py-jinja2, py-pygments, grass
Description:
QGIS is a free and open-source cross-platform desktop geographic information system application that supports viewing, editing, and analysis of geospatial data.

qgraf

Homepage:
Spack package:
Versions:
3.4.2
Description:
Qgraf is a computer program that generates Feynman diagrams for various types of QFT models

qhull

Homepage:
Spack package:
Versions:
2020.2, 2020.1, 2019.1, 2015.2, 2012.1
Build Dependencies:
cmake
Description:
Qhull computes the convex hull, Delaunay triangulation, Voronoi diagram, halfspace intersection about a point, furt hest-site Delaunay triangulation, and furthest-site Voronoi diagram. The source code runs in 2-d, 3-d, 4-d, and higher dimensions. Qhull implements the Quickhull algorithm for computing the convex hull. It handles roundoff errors from floating point arithmetic. It computes volumes, surface areas, and approximations to the convex hull.

qjson

Homepage:
Spack package:
Versions:
0.9.0
Build Dependencies:
cmake, qt
Link Dependencies:
qt
Description:
QJson is a Qt-based library that maps JSON data to QVariant objects and vice versa.

qmcpack

Homepage:
Spack package:
Versions:
develop, 3.14.0, 3.13.0, 3.12.0, 3.11.0, 3.10.0, 3.9.2, 3.9.1, 3.9.0, 3.8.0, 3.7.0, 3.6.0, 3.5.0, 3.4.0, 3.3.0, 3.2.0, 3.1.1, 3.1.0
Build Dependencies:
cuda, cmake, boost, libxml2, mpi, python, hdf5, blas, lapack, fftw-api
Link Dependencies:
cuda, libxml2, mpi, python, hdf5, blas, lapack, fftw-api
Run Dependencies:
py-numpy, py-matplotlib
Description:
QMCPACK, is a modern high-performance open-source Quantum Monte Carlo (QMC) simulation code.

qmd-progress

Homepage:
Spack package:
Versions:
develop, 1.1.0, 1.0.0
Build Dependencies:
cmake, bml, mpi, metis
Link Dependencies:
bml, mpi, metis
Description:
PROGRESS: Parallel, Rapid O(N) and Graph-based Recursive Electronic Structure Solver. This library is focused on the development of general solvers that are commonly used in quantum chemistry packages.

qnnpack

Homepage:
Spack package:
Versions:
master, 2019-08-28, 2018-12-27, 2018-12-04
Build Dependencies:
cmake, ninja, python
Description:
QNNPACK (Quantized Neural Networks PACKage) is a mobile-optimized library for low-precision high-performance neural network inference. QNNPACK provides implementation of common neural network operators on quantized 8-bit tensors.

qorts

Homepage:
Spack package:
Versions:
1.2.42
Build Dependencies:
r
Run Dependencies:
r, java
Description:
The QoRTs software package is a fast, efficient, and portable multifunction toolkit designed to assist in the analysis, quality control, and data management of RNA-Seq and DNA-Seq datasets. Its primary function is to aid in the detection and identification of errors, biases, and artifacts produced by high-throughput sequencing technology.

qperf

Homepage:
Spack package:
Versions:
0.4.11, 0.4.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The qperf measures bandwidth and latency between two nodes. It can work over TCP/IP as well as the RDMA transports.

qrupdate

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
qrupdate is a Fortran library for fast updates of QR and Cholesky decompositions.

qscintilla

Homepage:
Spack package:
Versions:
2.12.0, 2.11.6, 2.11.2, 2.10.2
Build Dependencies:
qt, py-pyqt5, py-pyqt4, python, py-sip
Link Dependencies:
qt
Run Dependencies:
py-pyqt5, py-pyqt4, python
Description:
QScintilla is a port to Qt of Neil Hodgson's Scintilla C++ editor control.

qt

Homepage:
Spack package:
Versions:
5.15.4, 5.15.3, 5.15.2, 5.14.2, 5.14.1, 5.14.0, 5.13.1, 5.12.10, 5.12.7, 5.12.5, 5.12.2, 5.11.3, 5.11.2, 5.10.0, 5.9.9, 5.9.1, 5.9.0, 5.8.0, 5.7.1, 5.7.0, 5.6.3, 5.5.1, 5.4.2, 5.4.0, 5.3.2, 5.2.1, 4.8.7, 4.8.6, 4.8.5, 3.3.8b
Build Dependencies:
pkgconfig, python, icu4c, jpeg, libmng, libtiff, libxml2, zlib, freetype, gtkplus, sqlite, libpng, libsm, pcre, inputproto, openssl, glib, dbus, gl, assimp, harfbuzz, double-conversion, pcre2, llvm, zstd, flex, bison, gperf, nss, ninja, libdrm, libxcomposite, libxcursor, libxi, libxtst, libxrandr, libxdamage, gettext, fontconfig, libx11, libxcb, libxkbcommon, xcb-util-image, xcb-util-keysyms, xcb-util-renderutil, xcb-util-wm, libxext, libxrender
Link Dependencies:
icu4c, jpeg, libmng, libtiff, libxml2, zlib, freetype, gtkplus, libpng, libsm, pcre, inputproto, openssl, glib, dbus, gl, assimp, harfbuzz, double-conversion, pcre2, llvm, zstd, gperf, nss, libdrm, libxcomposite, libxcursor, libxi, libxtst, libxrandr, libxdamage, gettext, fontconfig, libx11, libxcb, libxkbcommon, xcb-util-image, xcb-util-keysyms, xcb-util-renderutil, xcb-util-wm, libxext, libxrender
Run Dependencies:
sqlite
Description:
Qt is a comprehensive cross-platform C++ application framework.

qt-creator

Homepage:
Spack package:
Versions:
4.8.0
Build Dependencies:
qt, sqlite
Link Dependencies:
qt, sqlite
Description:
The Qt Creator IDE.

qtgraph

Homepage:
Spack package:
Versions:
develop, 1.0.0.0
Build Dependencies:
qt, graphviz
Link Dependencies:
qt, graphviz
Description:
The baseline library used in the CUDA-centric Open|SpeedShop Graphical User Interface (GUI) which allows Graphviz DOT formatted data to be imported into a Qt application by wrapping the Graphviz libcgraph and libgvc within the Qt Graphics View Framework.

qthreads

Homepage:
Spack package:
Versions:
1.16, 1.15, 1.14, 1.12, 1.11, 1.10
Build Dependencies:
gnuconfig, hwloc
Link Dependencies:
hwloc
Description:
The qthreads API is designed to make using large numbers of threads convenient and easy, and to allow portable access to threading constructs used in massively parallel shared memory environments. The API maps well to both MTA-style threading and PIM-style threading, and we provide an implementation of this interface in both a standard SMP context as well as the SST context. The qthreads API provides access to full/empty-bit (FEB) semantics, where every word of memory can be marked either full or empty, and a thread can wait for any word to attain either state.

qtkeychain

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
cmake, qt, libsecret
Link Dependencies:
qt, libsecret
Description:
Platform-independent Qt API for storing passwords securely.

qualimap

Homepage:
Spack package:
Versions:
2.2.1
Run Dependencies:
java
Description:
Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

quantum-espresso

Homepage:
Spack package:
Versions:
develop, 7.0, 6.8, 6.7, 6.6, 6.5, 6.4.1, 6.4, 6.3, 6.2.1, 6.2.0, 6.1.0, 6.0.0, 5.4, 5.3
Build Dependencies:
cmake, libxc, mpi, scalapack, elpa, hdf5, blas, lapack, fftw-api
Link Dependencies:
libxc, mpi, scalapack, elpa, hdf5, blas, lapack, fftw-api
Description:
Quantum ESPRESSO is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials.

quartz

Homepage:
Spack package:
Versions:
2.3.2, 2.3.1
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Quartz is a richly featured, open source job scheduling library that can be integrated within virtually any Java application - from the smallest stand-alone application to the largest e-commerce system.

qucs

Homepage:
Spack package:
Versions:
master, 0.0.19, 0.0.18
Build Dependencies:
gnuconfig, flex, bison, pkgconfig, autoconf, automake, libtool, m4, adms, qt, gperf
Link Dependencies:
adms, qt, gperf
Run Dependencies:
ngspice, xyce
Description:
QUCS - Quite Universal Circuit Simulator Qucs is an integrated circuit simulator which means you are able to setup a circuit with a graphical user interface (GUI) and simulate the large-signal, small-signal and noise behaviour of the circuit. After that simulation has finished you can view the simulation results on a presentation page or window.

quicksilver

Homepage:
Spack package:
Versions:
master, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Quicksilver is a proxy application that represents some elements of the Mercury workload.

quinoa

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, hdf5, charmpp, trilinos, boost, hypre, random123, netlib-lapack, mad-numdiff, h5part, boostmplcartesianproduct, tut, pugixml, pstreams, pegtl
Link Dependencies:
hdf5, charmpp, trilinos, boost, hypre, random123, netlib-lapack, mad-numdiff, h5part, boostmplcartesianproduct, tut, pugixml, pstreams, pegtl
Description:
Quinoa is a set of computational tools that enables research and numerical analysis in fluid dynamics. At this time it is a test-bed to experiment with various algorithms using fully asynchronous runtime systems.

quota

Homepage:
Spack package:
Versions:
4.05
Build Dependencies:
gnuconfig
Description:
Linux Diskquota system as part of the Linux kernel.

qwt

Homepage:
Spack package:
Versions:
6.1.6, 6.1.4, 6.1.3, 5.2.2
Build Dependencies:
qt
Link Dependencies:
qt
Description:
The Qwt library contains GUI Components and utility classes which are primarily useful for programs with a technical background. Beside a framework for 2D plots it provides scales, sliders, dials, compasses, thermometers, wheels and knobs to control or display values, arrays, or ranges of type double.

qwtpolar

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
qt, qwt
Link Dependencies:
qt, qwt
Description:
The QwtPolar library contains classes for displaying values on a polar coordinate system.

r

Homepage:
Spack package:
Versions:
4.1.3, 4.1.2, 4.1.1, 4.1.0, 4.0.5, 4.0.4, 4.0.3, 4.0.2, 4.0.1, 4.0.0, 3.6.3, 3.6.2, 3.6.1, 3.6.0, 3.5.3, 3.5.2, 3.5.1, 3.5.0, 3.4.4, 3.4.3, 3.4.2, 3.4.1, 3.4.0, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.5, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.3, 3.1.2
Build Dependencies:
gnuconfig, blas, lapack, bzip2, curl, icu4c, java, ncurses, pcre, pcre2, readline, xz, which, zlib, cairo, pango, harfbuzz, jpeg, libpng, libtiff, libx11, libxmu, libxt, tk
Link Dependencies:
blas, lapack, bzip2, curl, icu4c, java, ncurses, pcre, pcre2, readline, xz, zlib, cairo, pango, harfbuzz, jpeg, libpng, libtiff, libx11, libxmu, libxt, tk
Run Dependencies:
which
Description:
R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc. Please consult the R project homepage for further information.

r-a4

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-a4base, r-a4preproc, r-a4classif, r-a4core, r-a4reporting
Run Dependencies:
r, r-a4base, r-a4preproc, r-a4classif, r-a4core, r-a4reporting
Description:
Automated Affymetrix Array Analysis Umbrella Package. Umbrella package is available for the entire Automated Affymetrix Array Analysis suite of package.

r-a4base

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-a4preproc, r-a4core, r-biobase, r-annaffy, r-mpm, r-genefilter, r-limma, r-multtest, r-glmnet, r-gplots, r-annotationdbi
Run Dependencies:
r, r-a4preproc, r-a4core, r-biobase, r-annaffy, r-mpm, r-genefilter, r-limma, r-multtest, r-glmnet, r-gplots, r-annotationdbi
Description:
Automated Affymetrix Array Analysis Base Package. Base utility functions are available for the Automated Affymetrix Array Analysis set of packages.

r-a4classif

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-a4core, r-a4preproc, r-biobase, r-rocr, r-pamr, r-glmnet, r-varselrf, r-mlinterfaces
Run Dependencies:
r, r-a4core, r-a4preproc, r-biobase, r-rocr, r-pamr, r-glmnet, r-varselrf, r-mlinterfaces
Description:
Automated Affymetrix Array Analysis Classification Package. Functionalities for classification of Affymetrix microarray data, integrating within the Automated Affymetrix Array Analysis set of packages.

r-a4core

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-biobase, r-glmnet
Run Dependencies:
r, r-biobase, r-glmnet
Description:
Automated Affymetrix Array Analysis Core Package. Utility functions for the Automated Affymetrix Array Analysis set of packages.

r-a4preproc

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-annotationdbi
Run Dependencies:
r, r-biocgenerics, r-biobase, r-annotationdbi
Description:
Automated Affymetrix Array Analysis Preprocessing Package. Utility functions to pre-process data for the Automated Affymetrix Array Analysis set of packages.

r-a4reporting

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-xtable, r-annaffy
Run Dependencies:
r, r-xtable, r-annaffy
Description:
Automated Affymetrix Array Analysis Reporting Package. Utility functions to facilitate the reporting of the Automated Affymetrix Array Analysis Reporting set of packages.

r-abadata

Homepage:
Spack package:
Versions:
1.24.0, 1.20.0, 1.14.0, 1.12.0, 1.10.0, 1.8.0, 1.6.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Averaged gene expression in human brain regions from Allen Brain Atlas. Provides the data for the gene expression enrichment analysis conducted in the package 'ABAEnrichment'. The package includes three datasets which are derived from the Allen Brain Atlas: (1) Gene expression data from Human Brain (adults) averaged across donors, (2) Gene expression data from the Developing Human Brain pooled into five age categories and averaged across donors and (3) a developmental effect score based on the Developing Human Brain expression data. All datasets are restricted to protein coding genes.

r-abaenrichment

Homepage:
Spack package:
Versions:
1.24.0, 1.20.0, 1.14.1, 1.12.0, 1.10.0, 1.8.0, 1.6.0
Build Dependencies:
r, r-rcpp, r-gplots, r-gtools, r-abadata, r-data-table, r-gofuncr
Run Dependencies:
r, r-rcpp, r-gplots, r-gtools, r-abadata, r-data-table, r-gofuncr
Description:
Gene expression enrichment in human brain regions. The package ABAEnrichment is designed to test for enrichment of user defined candidate genes in the set of expressed genes in different human brain regions. The core function 'aba_enrich' integrates the expression of the candidate gene set (averaged across donors) and the structural information of the brain using an ontology, both provided by the Allen Brain Atlas project. 'aba_enrich' interfaces the ontology enrichment software FUNC to perform the statistical analyses. Additional functions provided in this package like 'get_expression' and 'plot_expression' facilitate exploring the expression data, and besides the standard candidate vs. background gene set enrichment, also three additional tests are implemented, e.g. for cases when genes are ranked instead of divided into candidate and background.

r-abind

Homepage:
Spack package:
Versions:
1.4-5, 1.4-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Combine Multidimensional Arrays. Combine multidimensional arrays into a single array. This is a generalization of 'cbind' and 'rbind'. Works with vectors, matrices, and higher-dimensional arrays. Also provides functions 'adrop', 'asub', and 'afill' for manipulating, extracting and replacing data in arrays.

r-absseq

Homepage:
Spack package:
Versions:
1.48.0, 1.44.0, 1.38.0, 1.36.0, 1.34.1, 1.32.3, 1.22.8
Build Dependencies:
r, r-locfit, r-limma
Run Dependencies:
r, r-locfit, r-limma
Description:
ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences. Inferring differential expression genes by absolute counts difference between two groups, utilizing Negative binomial distribution and moderating fold-change according to heterogeneity of dispersion across expression level.

r-acde

Homepage:
Spack package:
Versions:
1.24.0, 1.20.0, 1.14.0, 1.12.0, 1.10.0, 1.8.0, 1.6.0
Build Dependencies:
r, r-boot
Run Dependencies:
r, r-boot
Description:
Artificial Components Detection of Differentially Expressed Genes. This package provides a multivariate inferential analysis method for detecting differentially expressed genes in gene expression data. It uses artificial components, close to the data's principal components but with an exact interpretation in terms of differential genetic expression, to identify differentially expressed genes while controlling the false discovery rate (FDR). The methods on this package are described in the vignette or in the article 'Multivariate Method for Inferential Identification of Differentially Expressed Genes in Gene Expression Experiments' by J. P. Acosta, L. Lopez-Kleine and S. Restrepo (2015, pending publication).

r-acepack

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
r
Run Dependencies:
r
Description:
ACE and AVAS for Selecting Multiple Regression Transformations. Two nonparametric methods for multiple regression transform selection are provided. The first, Alternative Conditional Expectations (ACE), is an algorithm to find the fixed point of maximal correlation, i.e. it finds a set of transformed response variables that maximizes R^2 using smoothing functions [see Breiman, L., and J.H. Friedman. 1985. "Estimating Optimal Transformations for Multiple Regression and Correlation". Journal of the American Statistical Association. 80:580-598. <doi:10.1080/01621459.1985.10478157>]. Also included is the Additivity Variance Stabilization (AVAS) method which works better than ACE when correlation is low [see Tibshirani, R.. 1986. "Estimating Transformations for Regression via Additivity and Variance Stabilization". Journal of the American Statistical Association. 83:394-405. <doi:10.1080/01621459.1988.10478610>]. A good introduction to these two methods is in chapter 16 of Frank Harrel's "Regression Modeling Strategies" in the Springer Series in Statistics.

r-acgh

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0, 1.62.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0
Build Dependencies:
r, r-cluster, r-survival, r-multtest, r-biobase
Run Dependencies:
r, r-cluster, r-survival, r-multtest, r-biobase
Description:
Classes and functions for Array Comparative Genomic Hybridization data. Functions for reading aCGH data from image analysis output files and clone information files, creation of aCGH S3 objects for storing these data. Basic methods for accessing/replacing, subsetting, printing and plotting aCGH objects.

r-acme

Homepage:
Spack package:
Versions:
2.50.0, 2.46.0, 2.40.0, 2.38.0, 2.36.0, 2.34.0, 2.32.0
Build Dependencies:
r, r-biobase, r-biocgenerics
Run Dependencies:
r, r-biobase, r-biocgenerics
Description:
Algorithms for Calculating Microarray Enrichment (ACME). ACME (Algorithms for Calculating Microarray Enrichment) is a set of tools for analysing tiling array ChIP/chip, DNAse hypersensitivity, or other experiments that result in regions of the genome showing "enrichment". It does not rely on a specific array technology (although the array should be a "tiling" array), is very general (can be applied in experiments resulting in regions of enrichment), and is very insensitive to array noise or normalization methods. It is also very fast and can be applied on whole-genome tiling array experiments quite easily with enough memory.

r-ada

Homepage:
Spack package:
Versions:
2.0-5
Build Dependencies:
r, r-rpart
Run Dependencies:
r, r-rpart
Description:
The R Package Ada for Stochastic Boosting. Performs discrete, real, and gentle boost under both exponential and logistic loss on a given data set. The package ada provides a straightforward, well-documented, and broad boosting routine for classification, ideally suited for small to moderate-sized data sets.

r-adabag

Homepage:
Spack package:
Versions:
4.2, 4.1
Build Dependencies:
r, r-rpart, r-caret, r-foreach, r-doparallel, r-mlbench
Run Dependencies:
r, r-rpart, r-caret, r-foreach, r-doparallel, r-mlbench
Description:
Applies Multiclass AdaBoost.M1, SAMME and Bagging. It implements Freund and Schapire's Adaboost.M1 algorithm and Breiman's Bagging algorithm using classification trees as individual classifiers. Once these classifiers have been trained, they can be used to predict on new data. Also, cross validation estimation of the error can be done. Since version 2.0 the function margins() is available to calculate the margins for these classifiers. Also a higher flexibility is achieved giving access to the rpart.control() argument of 'rpart'. Four important new features were introduced on version 3.0, AdaBoost-SAMME (Zhu et al., 2009) is implemented and a new function errorevol() shows the error of the ensembles as a function of the number of iterations. In addition, the ensembles can be pruned using the option 'newmfinal' in the predict.bagging() and predict.boosting() functions and the posterior probability of each class for observations can be obtained. Version 3.1 modifies the relative importance measure to take into account the gain of the Gini index given by a variable in each tree and the weights of these trees. Version 4.0 includes the margin-based ordered aggregation for Bagging pruning (Guo and Boukir, 2013) and a function to auto prune the 'rpart' tree. Moreover, three new plots are also available importanceplot(), plot.errorevol() and plot.margins(). Version 4.1 allows to predict on unlabeled data. Version 4.2 includes the parallel computation option for some of the functions.

r-ade4

Homepage:
Spack package:
Versions:
1.7-18, 1.7-16, 1.7-13, 1.7-11, 1.7-6
Build Dependencies:
r, r-mass, r-pixmap, r-sp, r-progress
Run Dependencies:
r, r-mass, r-pixmap, r-sp, r-progress
Description:
Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences. Tools for multivariate data analysis. Several methods are provided for the analysis (i.e., ordination) of one-table (e.g., principal component analysis, correspondence analysis), two-table (e.g., coinertia analysis, redundancy analysis), three-table (e.g., RLQ analysis) and K-table (e.g., STATIS, multiple coinertia analysis). The philosophy of the package is described in Dray and Dufour (2007) <doi:10.18637/jss.v022.i04>.

r-adegenet

Homepage:
Spack package:
Versions:
2.1.5, 2.1.3, 2.1.1, 2.1.0, 2.0.1
Build Dependencies:
r, r-ade4, r-mass, r-igraph, r-ape, r-shiny, r-ggplot2, r-seqinr, r-boot, r-reshape2, r-dplyr, r-vegan, r-spdep
Run Dependencies:
r, r-ade4, r-mass, r-igraph, r-ape, r-shiny, r-ggplot2, r-seqinr, r-boot, r-reshape2, r-dplyr, r-vegan, r-spdep
Description:
Exploratory Analysis of Genetic and Genomic Data. Toolset for the exploration of genetic and genomic data. Adegenet provides formal (S4) classes for storing and handling various genetic data, including genetic markers with varying ploidy and hierarchical population structure ('genind' class), alleles counts by populations ('genpop'), and genome- wide SNP data ('genlight'). It also implements original multivariate methods (DAPC, sPCA), graphics, statistical tests, simulation tools, distance and similarity measures, and several spatial methods. A range of both empirical and simulated datasets is also provided to illustrate various methods.

r-adegraphics

Homepage:
Spack package:
Versions:
1.0-16, 1.0-15
Build Dependencies:
r, r-ade4, r-kernsmooth, r-lattice, r-latticeextra, r-rcolorbrewer, r-sp
Run Dependencies:
r, r-ade4, r-kernsmooth, r-lattice, r-latticeextra, r-rcolorbrewer, r-sp
Description:
An S4 Lattice-Based Package for the Representation of Multivariate Data. Graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.

r-adephylo

Homepage:
Spack package:
Versions:
1.1-11
Build Dependencies:
r, r-ade4, r-phylobase, r-ape, r-adegenet
Run Dependencies:
r, r-ade4, r-phylobase, r-ape, r-adegenet
Description:
Exploratory Analyses for the Phylogenetic Comparative Method. Multivariate tools to analyze comparative data, i.e. a phylogeny and some traits measured for each taxa.

r-adespatial

Homepage:
Spack package:
Versions:
0.3-14, 0.3-8
Build Dependencies:
r, r-ade4, r-adegraphics, r-adephylo, r-sp, r-spdep, r-lattice, r-mass, r-shiny, r-vegan
Run Dependencies:
r, r-ade4, r-adegraphics, r-adephylo, r-sp, r-spdep, r-lattice, r-mass, r-shiny, r-vegan
Description:
Multivariate Multiscale Spatial Analysis. Tools for the multiscale spatial analysis of multivariate data. Several methods are based on the use of a spatial weighting matrix and its eigenvector decomposition (Moran's Eigenvectors Maps, MEM). Several approaches are described in the review Dray et al (2012) <doi:10.1890/11-1183.1>.

r-adgoftest

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Anderson-Darling GoF test. Anderson-Darling GoF test with p-value calculation based on Marsaglia's 2004 paper 'Evaluating the Anderson- Darling Distribution'.

r-adsplit

Homepage:
Spack package:
Versions:
1.64.0, 1.60.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0, 1.46.0
Build Dependencies:
r, r-annotationdbi, r-biobase, r-cluster, r-go-db, r-keggrest, r-multtest, r-kegg-db
Run Dependencies:
r, r-annotationdbi, r-biobase, r-cluster, r-go-db, r-keggrest, r-multtest, r-kegg-db
Description:
Annotation-Driven Clustering. This package implements clustering of microarray gene expression profiles according to functional annotations. For each term genes are annotated to, splits into two subclasses are computed and a significance of the supporting gene set is determined.

r-aer

Homepage:
Spack package:
Versions:
1.2-9, 1.2-7, 1.2-6, 1.2-5
Build Dependencies:
r, r-car, r-lmtest, r-sandwich, r-survival, r-zoo, r-formula
Run Dependencies:
r, r-car, r-lmtest, r-sandwich, r-survival, r-zoo, r-formula
Description:
Applied Econometrics with R. Functions, data sets, examples, demos, and vignettes for the book Christian Kleiber and Achim Zeileis (2008), Applied Econometrics with R, Springer-Verlag, New York. ISBN 978-0-387-77316-2.

r-afex

Homepage:
Spack package:
Versions:
1.0-1, 0.28-1
Build Dependencies:
r, r-lme4, r-pbkrtest, r-lmertest, r-car, r-reshape2
Run Dependencies:
r, r-lme4, r-pbkrtest, r-lmertest, r-car, r-reshape2
Description:
Analysis of Factorial Experiments. Convenience functions for analyzing factorial experiments using ANOVA or mixed models. aov_ez(), aov_car(), and aov_4() allow specification of between, within (i.e., repeated- measures), or mixed (i.e., split-plot) ANOVAs for data in long format (i.e., one observation per row), automatically aggregating multiple observations per individual and cell of the design. mixed() fits mixed models using lme4::lmer() and computes p-values for all fixed effects using either Kenward-Roger or Satterthwaite approximation for degrees of freedom (LMM only), parametric bootstrap (LMMs and GLMMs), or likelihood ratio tests (LMMs and GLMMs). afex_plot() provides a high-level interface for interaction or one-way plots using ggplot2, combining raw data and model estimates. afex uses type 3 sums of squares as default (imitating commercial statistical software).

r-affxparser

Homepage:
Spack package:
Versions:
1.66.0, 1.62.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Affymetrix File Parsing SDK. Package for parsing Affymetrix files (CDF, CEL, CHP, BPMAP, BAR). It provides methods for fast and memory efficient parsing of Affymetrix files using the Affymetrix' Fusion SDK. Both ASCII- and binary-based files are supported. Currently, there are methods for reading chip definition file (CDF) and a cell intensity file (CEL). These files can be read either in full or in part. For example, probe signals from a few probesets can be extracted very quickly from a set of CEL files into a convenient list structure.

r-affy

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0, 1.62.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-affyio, r-biocmanager, r-preprocesscore, r-zlibbioc, r-biocinstaller
Run Dependencies:
r, r-biocgenerics, r-biobase, r-affyio, r-biocmanager, r-preprocesscore, r-zlibbioc, r-biocinstaller
Description:
Methods for Affymetrix Oligonucleotide Arrays. The package contains functions for exploratory oligonucleotide array analysis. The dependence on tkWidgets only concerns few convenience functions. 'affy' is fully functional without it.

r-affycomp

Homepage:
Spack package:
Versions:
1.70.0, 1.66.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0
Build Dependencies:
r, r-biobase
Run Dependencies:
r, r-biobase
Description:
Graphics Toolbox for Assessment of Affymetrix Expression Measures. The package contains functions that can be used to compare expression measures for Affymetrix Oligonucleotide Arrays.

r-affycompatible

Homepage:
Spack package:
Versions:
1.54.0, 1.50.0, 1.44.0, 1.42.0, 1.40.0, 1.38.0, 1.36.0
Build Dependencies:
r, r-xml, r-rcurl, r-biostrings
Run Dependencies:
r, r-xml, r-rcurl, r-biostrings
Description:
Affymetrix GeneChip software compatibility. This package provides an interface to Affymetrix chip annotation and sample attribute files. The package allows an easy way for users to download and manage local data bases of Affynmetrix NetAffx annotation files. The package also provides access to GeneChip Operating System (GCOS) and GeneChip Command Console (AGCC)-compatible sample annotation files.

r-affycontam

Homepage:
Spack package:
Versions:
1.52.0, 1.48.0, 1.42.0, 1.40.0, 1.38.0, 1.36.0, 1.34.0
Build Dependencies:
r, r-biobase, r-affy, r-affydata
Run Dependencies:
r, r-biobase, r-affy, r-affydata
Description:
structured corruption of affymetrix cel file data. structured corruption of cel file data to demonstrate QA effectiveness

r-affycoretools

Homepage:
Spack package:
Versions:
1.66.0, 1.62.0, 1.56.0, 1.54.0, 1.52.2, 1.50.6, 1.48.0
Build Dependencies:
r, r-biobase, r-affy, r-limma, r-gostats, r-gcrma, r-xtable, r-annotationdbi, r-ggplot2, r-gplots, r-oligoclasses, r-reportingtools, r-hwriter, r-lattice, r-s4vectors, r-edger, r-rsqlite, r-biocgenerics, r-dbi, r-glimma
Run Dependencies:
r, r-biobase, r-affy, r-limma, r-gostats, r-gcrma, r-xtable, r-annotationdbi, r-ggplot2, r-gplots, r-oligoclasses, r-reportingtools, r-hwriter, r-lattice, r-s4vectors, r-edger, r-rsqlite, r-biocgenerics, r-dbi, r-glimma
Description:
Functions useful for those doing repetitive analyses with Affymetrix GeneChips. Various wrapper functions that have been written to streamline the more common analyses that a core Biostatistician might see.

r-affydata

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-affy
Run Dependencies:
r, r-affy
Description:
Affymetrix Data for Demonstration Purpose. Example datasets of a slightly large size. They represent 'real world examples', unlike the artificial examples included in the package affy.

r-affyexpress

Homepage:
Spack package:
Versions:
1.56.0, 1.50.0, 1.48.0, 1.46.0, 1.44.0, 1.42.0
Build Dependencies:
r, r-affy, r-limma
Run Dependencies:
r, r-affy, r-limma
Description:
Affymetrix Quality Assessment and Analysis Tool. The purpose of this package is to provide a comprehensive and easy-to- use tool for quality assessment and to identify differentially expressed genes in the Affymetrix gene expression data.

r-affyilm

Homepage:
Spack package:
Versions:
1.46.0, 1.42.0, 1.36.0, 1.34.0, 1.32.0, 1.30.0, 1.28.0
Build Dependencies:
r, r-gcrma, r-affxparser, r-affy, r-biobase
Run Dependencies:
r, r-gcrma, r-affxparser, r-affy, r-biobase
Description:
Linear Model of background subtraction and the Langmuir isotherm. affyILM is a preprocessing tool which estimates gene expression levels for Affymetrix Gene Chips. Input from physical chemistry is employed to first background subtract intensities before calculating concentrations on behalf of the Langmuir model.

r-affyio

Homepage:
Spack package:
Versions:
1.64.0, 1.60.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0, 1.46.0
Build Dependencies:
r, r-zlibbioc
Run Dependencies:
r, r-zlibbioc
Description:
Tools for parsing Affymetrix data files. Routines for parsing Affymetrix data files based upon file format information. Primary focus is on accessing the CEL and CDF file formats.

r-affypdnn

Homepage:
Spack package:
Versions:
1.58.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0
Build Dependencies:
r, r-affy
Run Dependencies:
r, r-affy
Description:
Probe Dependent Nearest Neighbours (PDNN) for the affy package. The package contains functions to perform the PDNN method described by Li Zhang et al.

r-affyplm

Homepage:
Spack package:
Versions:
1.70.0, 1.66.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0, 1.52.1
Build Dependencies:
r, r-biocgenerics, r-affy, r-biobase, r-gcrma, r-preprocesscore, r-zlibbioc
Run Dependencies:
r, r-biocgenerics, r-affy, r-biobase, r-gcrma, r-preprocesscore, r-zlibbioc
Description:
Methods for fitting probe-level models. A package that extends and improves the functionality of the base affy package. Routines that make heavy use of compiled code for speed. Central focus is on implementation of methods for fitting probe-level models and tools using these models. PLM based quality assessment tools.

r-affyqcreport

Homepage:
Spack package:
Versions:
1.68.0, 1.62.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0
Build Dependencies:
r, r-biobase, r-affy, r-lattice, r-affyplm, r-genefilter, r-rcolorbrewer, r-simpleaffy, r-xtable
Run Dependencies:
r, r-biobase, r-affy, r-lattice, r-affyplm, r-genefilter, r-rcolorbrewer, r-simpleaffy, r-xtable
Description:
QC Report Generation for affyBatch objects. This package creates a QC report for an AffyBatch object. The report is intended to allow the user to quickly assess the quality of a set of arrays in an AffyBatch object.

r-affyrnadegradation

Homepage:
Spack package:
Versions:
1.40.0, 1.36.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0, 1.22.0
Build Dependencies:
r, r-affy
Run Dependencies:
r, r-affy
Description:
Analyze and correct probe positional bias in microarray data due to RNA degradation. The package helps with the assessment and correction of RNA degradation effects in Affymetrix 3' expression arrays. The parameter d gives a robust and accurate measure of RNA integrity. The correction removes the probe positional bias, and thus improves comparability of samples that are affected by RNA degradation.

r-agdex

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0
Build Dependencies:
r, r-biobase, r-gseabase
Run Dependencies:
r, r-biobase, r-gseabase
Description:
Agreement of Differential Expression Analysis. A tool to evaluate agreement of differential expression for cross- species genomics

r-agilp

Homepage:
Spack package:
Versions:
3.26.0, 3.22.0, 3.16.0, 3.14.0, 3.12.0, 3.10.0, 3.8.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Agilent expression array processing package. More about what it does (maybe more than one line).

r-agimicrorna

Homepage:
Spack package:
Versions:
2.44.0, 2.40.0, 2.34.0, 2.32.0, 2.30.0, 2.28.0, 2.26.0
Build Dependencies:
r, r-biobase, r-limma, r-affy, r-preprocesscore, r-affycoretools
Run Dependencies:
r, r-biobase, r-limma, r-affy, r-preprocesscore, r-affycoretools
Description:
Processing and Differential Expression Analysis of Agilent microRNA chips. Processing and Analysis of Agilent microRNA data.

r-aims

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.16.0, 1.14.1, 1.12.0, 1.10.0, 1.8.0
Build Dependencies:
r, r-e1071, r-biobase
Run Dependencies:
r, r-e1071, r-biobase
Description:
Absolute Assignment of Breast Cancer Intrinsic Molecular Subtype. This package contains the AIMS implementation. It contains necessary functions to assign the five intrinsic molecular subtypes (Luminal A, Luminal B, Her2-enriched, Basal-like, Normal-like). Assignments could be done on individual samples as well as on dataset of gene expression data.

r-aldex2

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.16.0, 1.14.1, 1.12.0, 1.10.0, 1.8.0
Build Dependencies:
r, r-zcompositions, r-rfast, r-biocparallel, r-genomicranges, r-iranges, r-s4vectors, r-summarizedexperiment, r-multtest
Run Dependencies:
r, r-zcompositions, r-rfast, r-biocparallel, r-genomicranges, r-iranges, r-s4vectors, r-summarizedexperiment, r-multtest
Description:
Analysis Of Differential Abundance Taking Sample Variation Into Account. A differential abundance analysis for the comparison of two or more conditions. Useful for analyzing data from standard RNA-seq or meta-RNA- seq assays as well as selected and unselected values from in-vitro sequence selections. Uses a Dirichlet-multinomial model to infer abundance from counts, optimized for three or more experimental replicates. The method infers biological and sampling variation to calculate the expected false discovery rate, given the variation, based on a Wilcoxon Rank Sum test and Welch's t-test (via aldex.ttest), a Kruskal-Wallis test (via aldex.kw), a generalized linear model (via aldex.glm), or a correlation test (via aldex.corr). All tests report p-values and Benjamini-Hochberg corrected p-values.

r-alpine

Homepage:
Spack package:
Versions:
1.20.0, 1.16.0, 1.10.0, 1.8.0, 1.6.0, 1.4.0, 1.2.0
Build Dependencies:
r, r-biostrings, r-iranges, r-genomicranges, r-genomicalignments, r-rsamtools, r-summarizedexperiment, r-genomicfeatures, r-speedglm, r-graph, r-rbgl, r-stringr, r-genomeinfodb, r-s4vectors
Run Dependencies:
r, r-biostrings, r-iranges, r-genomicranges, r-genomicalignments, r-rsamtools, r-summarizedexperiment, r-genomicfeatures, r-speedglm, r-graph, r-rbgl, r-stringr, r-genomeinfodb, r-s4vectors
Description:
alpine. Fragment sequence bias modeling and correction for RNA-seq transcript abundance estimation.

r-als

Homepage:
Spack package:
Versions:
0.0.6
Build Dependencies:
r, r-iso, r-nnls
Run Dependencies:
r, r-iso, r-nnls
Description:
Multivariate Curve Resolution Alternating Least Squares (MCR-ALS). Alternating least squares is often used to resolve components contributing to data with a bilinear structure; the basic technique may be extended to alternating constrained least squares. Commonly applied constraints include unimodality, non-negativity, and normalization of components. Several data matrices may be decomposed simultaneously by assuming that one of the two matrices in the bilinear decomposition is shared between datasets.

r-alsace

Homepage:
Spack package:
Versions:
1.30.0, 1.26.0, 1.20.0, 1.18.0, 1.16.0, 1.14.0, 1.12.0
Build Dependencies:
r, r-als, r-ptw
Run Dependencies:
r, r-als, r-ptw
Description:
ALS for the Automatic Chemical Exploration of mixtures. Alternating Least Squares (or Multivariate Curve Resolution) for analytical chemical data, in particular hyphenated data where the first direction is a retention time axis, and the second a spectral axis. Package builds on the basic als function from the ALS package and adds functionality for high-throughput analysis, including definition of time windows, clustering of profiles, retention time correction, etcetera.

r-altcdfenvs

Homepage:
Spack package:
Versions:
2.56.0, 2.52.0, 2.46.0, 2.44.0, 2.42.0, 2.40.0, 2.38.0
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-biobase, r-affy, r-makecdfenv, r-biostrings, r-hypergraph
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-biobase, r-affy, r-makecdfenv, r-biostrings, r-hypergraph
Description:
alternative CDF environments (aka probeset mappings). Convenience data structures and functions to handle cdfenvs.

r-amap

Homepage:
Spack package:
Versions:
0.8-18, 0.8-17, 0.8-16
Build Dependencies:
r
Run Dependencies:
r
Description:
Another Multidimensional Analysis Package. Tools for Clustering and Principal Component Analysis (With robust methods, and parallelized functions).

r-amelia

Homepage:
Spack package:
Versions:
1.8.0, 1.7.6
Build Dependencies:
r, r-rcpp, r-foreign, r-rcpparmadillo
Run Dependencies:
r, r-rcpp, r-foreign, r-rcpparmadillo
Description:
A Program for Missing Data. A tool that "multiply imputes" missing data in a single cross-section (such as a survey), from a time series (like variables collected for each year in a country), or from a time-series- cross-sectional data set (such as collected by years for each of several countries). Amelia II implements our bootstrapping-based algorithm that gives essentially the same answers as the standard IP or EMis approaches, is usually considerably faster than existing approaches and can handle many more variables. Unlike Amelia I and other statistically rigorous imputation software, it virtually never crashes (but please let us know if you find to the contrary!). The program also generalizes existing approaches by allowing for trends in time series across observations within a cross-sectional unit, as well as priors that allow experts to incorporate beliefs they have about the values of missing cells in their data. Amelia II also includes useful diagnostics of the fit of multiple imputation models. The program works from the R command line or via a graphical user interface that does not require users to know R.

r-ampliqueso

Homepage:
Spack package:
Versions:
1.21.0, 1.20.0, 1.18.0, 1.16.0, 1.14.0
Build Dependencies:
r, r-rnaseqmap, r-knitr, r-rgl, r-ggplot2, r-gplots, r-doparallel, r-foreach, r-variantannotation, r-genefilter, r-statmod, r-xtable, r-edger, r-deseq, r-samr
Run Dependencies:
r, r-rnaseqmap, r-knitr, r-rgl, r-ggplot2, r-gplots, r-doparallel, r-foreach, r-variantannotation, r-genefilter, r-statmod, r-xtable, r-edger, r-deseq, r-samr
Description:
Analysis of amplicon enrichment panels. The package provides tools and reports for the analysis of amplicon sequencing panels, such as AmpliSeq

r-analysispageserver

Homepage:
Spack package:
Versions:
1.18.1, 1.16.0, 1.14.0, 1.12.0, 1.10.0
Build Dependencies:
r, r-log4r, r-rjson, r-biobase, r-graph
Run Dependencies:
r, r-log4r, r-rjson, r-biobase, r-graph
Description:
A framework for sharing interactive data and plots from R through the web. AnalysisPageServer is a modular system that enables sharing of customizable R analyses via the web.

r-anaquin

Homepage:
Spack package:
Versions:
2.18.0, 2.14.0, 2.8.0, 2.6.1, 2.4.0, 2.2.0, 1.2.0
Build Dependencies:
r, r-ggplot2, r-rocr, r-knitr, r-qvalue, r-locfit, r-plyr, r-deseq2
Run Dependencies:
r, r-ggplot2, r-rocr, r-knitr, r-qvalue, r-locfit, r-plyr, r-deseq2
Description:
Statistical analysis of sequins. The project is intended to support the use of sequins (synthetic sequencing spike-in controls) owned and made available by the Garvan Institute of Medical Research. The goal is to provide a standard open source library for quantitative analysis, modelling and visualization of spike-in controls.

r-aneufinder

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0, 1.12.1, 1.10.2, 1.8.0, 1.6.0, 1.4.0
Build Dependencies:
r, r-genomicranges, r-ggplot2, r-cowplot, r-aneufinderdata, r-foreach, r-doparallel, r-biocgenerics, r-s4vectors, r-genomeinfodb, r-iranges, r-rsamtools, r-bamsignals, r-dnacopy, r-ecp, r-biostrings, r-genomicalignments, r-reshape2, r-ggdendro, r-ggrepel, r-reordercluster, r-mclust
Run Dependencies:
r, r-genomicranges, r-ggplot2, r-cowplot, r-aneufinderdata, r-foreach, r-doparallel, r-biocgenerics, r-s4vectors, r-genomeinfodb, r-iranges, r-rsamtools, r-bamsignals, r-dnacopy, r-ecp, r-biostrings, r-genomicalignments, r-reshape2, r-ggdendro, r-ggrepel, r-reordercluster, r-mclust
Description:
Analysis of Copy Number Variation in Single-Cell-Sequencing Data. AneuFinder implements functions for copy-number detection, breakpoint detection, and karyotype and heterogeneity analysis in single-cell whole genome sequencing and strand-seq data.

r-aneufinderdata

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0, 1.12.0, 1.10.0, 1.8.0, 1.6.0, 1.4.0
Build Dependencies:
r
Run Dependencies:
r
Description:
WGSCS Data for Demonstration Purposes. Whole-genome single cell sequencing data for demonstration purposes in the AneuFinder package.

r-animation

Homepage:
Spack package:
Versions:
2.7, 2.6, 2.5
Build Dependencies:
r, r-magick, imagemagick, texlive, swftools, ffmpeg
Link Dependencies:
imagemagick, texlive, swftools, ffmpeg
Run Dependencies:
r, r-magick
Description:
A Gallery of Animations in Statistics and Utilities to Create Animations. Provides functions for animations in statistics, covering topics in probability theory, mathematical statistics, multivariate statistics, non-parametric statistics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions maybe helpful in teaching statistics and data analysis.

r-annaffy

Homepage:
Spack package:
Versions:
1.66.0, 1.62.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0
Build Dependencies:
r, r-biobase, r-biocmanager, r-go-db, r-annotationdbi, r-dbi, r-kegg-db
Run Dependencies:
r, r-biobase, r-biocmanager, r-go-db, r-annotationdbi, r-dbi, r-kegg-db
Description:
Annotation tools for Affymetrix biological metadata. Functions for handling data from Bioconductor Affymetrix annotation data packages. Produces compact HTML and text reports including experimental data and URL links to many online databases. Allows searching biological metadata using various criteria.

r-annotate

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0, 1.62.0, 1.60.1, 1.58.0, 1.56.2, 1.54.0
Build Dependencies:
r, r-annotationdbi, r-xml, r-biobase, r-dbi, r-xtable, r-biocgenerics, r-httr, r-rcurl
Run Dependencies:
r, r-annotationdbi, r-xml, r-biobase, r-dbi, r-xtable, r-biocgenerics, r-httr, r-rcurl
Description:
Annotation for microarrays. Using R enviroments for annotation.

r-annotationdbi

Homepage:
Spack package:
Versions:
1.56.2, 1.52.0, 1.46.1, 1.44.0, 1.42.1, 1.40.0, 1.38.2
Build Dependencies:
r, r-biocgenerics, r-biobase, r-iranges, r-dbi, r-rsqlite, r-s4vectors, r-keggrest
Run Dependencies:
r, r-biocgenerics, r-biobase, r-iranges, r-dbi, r-rsqlite, r-s4vectors, r-keggrest
Description:
Manipulation of SQLite-based annotations in Bioconductor. Implements a user-friendly interface for querying SQLite-based annotation data packages.

r-annotationfilter

Homepage:
Spack package:
Versions:
1.18.0, 1.14.0, 1.8.0, 1.6.0, 1.4.0, 1.2.0, 1.0.0
Build Dependencies:
r, r-genomicranges, r-lazyeval
Run Dependencies:
r, r-genomicranges, r-lazyeval
Description:
Facilities for Filtering Bioconductor Annotation Resources. This package provides class and other infrastructure to implement filters for manipulating Bioconductor annotation resources. The filters will be used by ensembldb, Organism.dplyr, and other packages.

r-annotationforge

Homepage:
Spack package:
Versions:
1.36.0, 1.32.0, 1.26.0, 1.24.0, 1.22.2, 1.20.0, 1.18.2
Build Dependencies:
r, r-biocgenerics, r-biobase, r-annotationdbi, r-dbi, r-rsqlite, r-xml, r-s4vectors, r-rcurl
Run Dependencies:
r, r-biocgenerics, r-biobase, r-annotationdbi, r-dbi, r-rsqlite, r-xml, r-s4vectors, r-rcurl
Description:
Tools for building SQLite-based annotation data packages. Provides code for generating Annotation packages and their databases. Packages produced are intended to be used with AnnotationDbi.

r-annotationhub

Homepage:
Spack package:
Versions:
3.2.1, 2.22.0, 2.16.1, 2.14.5, 2.12.1, 2.10.1, 2.8.3
Build Dependencies:
r, r-biocgenerics, r-biocfilecache, r-rsqlite, r-biocmanager, r-biocversion, r-curl, r-rappdirs, r-annotationdbi, r-s4vectors, r-interactivedisplaybase, r-httr, r-yaml, r-dplyr, r-biocinstaller
Run Dependencies:
r, r-biocgenerics, r-biocfilecache, r-rsqlite, r-biocmanager, r-biocversion, r-curl, r-rappdirs, r-annotationdbi, r-s4vectors, r-interactivedisplaybase, r-httr, r-yaml, r-dplyr, r-biocinstaller
Description:
Client to access AnnotationHub resources. This package provides a client for the Bioconductor AnnotationHub web resource. The AnnotationHub web resource provides a central location where genomic files (e.g., VCF, bed, wig) and other resources from standard locations (e.g., UCSC, Ensembl) can be discovered. The resource includes metadata about each resource, e.g., a textual description, tags, and date of modification. The client creates and manages a local cache of files retrieved by the user, helping with quick and reproducible access.

r-anytime

Homepage:
Spack package:
Versions:
0.3.9
Build Dependencies:
r, r-rcpp, r-bh
Run Dependencies:
r, r-rcpp, r-bh
Description:
Anything to 'POSIXct' or 'Date' Converter. Convert input in any one of character, integer, numeric, factor, or ordered type into 'POSIXct' (or 'Date') objects, using one of a number of predefined formats, and relying on Boost facilities for date and time parsing.

r-aod

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Analysis of Overdispersed Data. Provides a set of functions to analyse overdispersed counts or proportions. Most of the methods are already available elsewhere but are scattered in different packages. The proposed functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM).

r-ape

Homepage:
Spack package:
Versions:
5.6-1, 5.4-1, 5.3, 5.2, 5.1, 5.0, 4.1
Build Dependencies:
r, r-nlme, r-lattice, r-rcpp
Run Dependencies:
r, r-nlme, r-lattice, r-rcpp
Description:
Analyses of Phylogenetics and Evolution. Functions for reading, writing, plotting, and manipulating phylogenetic trees, analyses of comparative data in a phylogenetic framework, ancestral character analyses, analyses of diversification and macroevolution, computing distances from DNA sequences, reading and writing nucleotide sequences as well as importing from BioConductor, and several tools such as Mantel's test, generalized skyline plots, graphical exploration of phylogenetic data (alex, trex, kronoviz), estimation of absolute evolutionary rates and clock-like trees using mean path lengths and penalized likelihood, dating trees with non-contemporaneous sequences, translating DNA into AA sequences, and assessing sequence alignments. Phylogeny estimation can be done with the NJ, BIONJ, ME, MVR, SDM, and triangle methods, and several methods handling incomplete distance matrices (NJ*, BIONJ*, MVR*, and the corresponding triangle method). Some functions call external applications (PhyML, Clustal, T-Coffee, Muscle) whose results are returned into R.

r-aplot

Homepage:
Spack package:
Versions:
0.1.2
Build Dependencies:
r, r-ggfun, r-ggplot2, r-ggplotify, r-patchwork, r-magrittr, r-yulab-utils
Run Dependencies:
r, r-ggfun, r-ggplot2, r-ggplotify, r-patchwork, r-magrittr, r-yulab-utils
Description:
Decorate a 'ggplot' with Associated Information. For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. This package provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched.

r-argparse

Homepage:
Spack package:
Versions:
2.1.3, 2.0.3, 2.0.1, 1.1.1
Build Dependencies:
r, r-r6, r-findpython, r-jsonlite, python, r-proto, r-getopt
Run Dependencies:
r, r-r6, r-findpython, r-jsonlite, python, r-proto, r-getopt
Description:
Command Line Optional and Positional Argument Parser. A command line parser to be used with Rscript to write "#!" shebang scripts that gracefully accept positional and optional arguments and automatically generate usage.

r-aroma-light

Homepage:
Spack package:
Versions:
3.24.0, 3.20.0, 3.16.0
Build Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-matrixstats
Run Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-matrixstats
Description:
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types. Methods for microarray analysis that take basic data types such as matrices and lists of vectors. These methods can be used standalone, be utilized in other packages, or be wrapped up in higher-level classes.

r-ash

Homepage:
Spack package:
Versions:
1.0-15
Build Dependencies:
r
Run Dependencies:
r
Description:
David Scott's ASH Routines. David Scott's ASH routines ported from S-PLUS to R.

r-askpass

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
r, r-sys
Run Dependencies:
r, r-sys
Description:
Safe Password Entry for R, Git, and SSH. Cross-platform utilities for prompting the user for credentials or a passphrase, for example to authenticate with a server or read a protected key. Includes native programs for MacOS and Windows, hence no 'tcltk' is required. Password entry can be invoked in two different ways: directly from R via the askpass() function, or indirectly as password-entry back-end for 'ssh- agent' or 'git-credential' via the SSH_ASKPASS and GIT_ASKPASS environment variables. Thereby the user can be prompted for credentials or a passphrase if needed when R calls out to git or ssh.

r-assertive-base

Homepage:
Spack package:
Versions:
0.0-9, 0.0-7, 0.0-1
Build Dependencies:
r
Run Dependencies:
r
Description:
A Lightweight Core of the 'assertive' Package. A minimal set of predicates and assertions used by the assertive package. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-code

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base, r-assertive-properties, r-assertive-types
Run Dependencies:
r, r-assertive-base, r-assertive-properties, r-assertive-types
Description:
Assertions to Check Properties of Code. A set of predicates and assertions for checking the properties of code. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-data

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base, r-assertive-strings
Run Dependencies:
r, r-assertive-base, r-assertive-strings
Description:
Assertions to Check Properties of Data. A set of predicates and assertions for checking the properties of (country independent) complex data types. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-data-uk

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base, r-assertive-strings
Run Dependencies:
r, r-assertive-base, r-assertive-strings
Description:
Assertions to Check Properties of Strings. A set of predicates and assertions for checking the properties of UK-specific complex data types. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-data-us

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base, r-assertive-strings
Run Dependencies:
r, r-assertive-base, r-assertive-strings
Description:
Assertions to Check Properties of Strings. A set of predicates and assertions for checking the properties of US-specific complex data types. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-datetimes

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base, r-assertive-types
Run Dependencies:
r, r-assertive-base, r-assertive-types
Description:
Assertions to Check Properties of Dates and Times. A set of predicates and assertions for checking the properties of dates and times. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-files

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base, r-assertive-numbers
Run Dependencies:
r, r-assertive-base, r-assertive-numbers
Description:
Assertions to Check Properties of Files. A set of predicates and assertions for checking the properties of files and connections. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-matrices

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions to Check Properties of Matrices. A set of predicates and assertions for checking the properties of matrices. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-models

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions to Check Properties of Models. A set of predicates and assertions for checking the properties of models. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-numbers

Homepage:
Spack package:
Versions:
0.0-2
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions to Check Properties of Numbers. A set of predicates and assertions for checking the properties of numbers. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-properties

Homepage:
Spack package:
Versions:
0.0-4
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions to Check Properties of Variables. A set of predicates and assertions for checking the properties of variables, such as length, names and attributes. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-reflection

Homepage:
Spack package:
Versions:
0.0-5
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions for Checking the State of R. A set of predicates and assertions for checking the state and capabilities of R, the operating system it is running on, and the IDE being used. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-sets

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base
Run Dependencies:
r, r-assertive-base
Description:
Assertions to Check Properties of Sets. A set of predicates and assertions for checking the properties of sets. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-strings

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base, r-assertive-types, r-stringi
Run Dependencies:
r, r-assertive-base, r-assertive-types, r-stringi
Description:
Assertions to Check Properties of Strings. A set of predicates and assertions for checking the properties of strings. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertive-types

Homepage:
Spack package:
Versions:
0.0-3
Build Dependencies:
r, r-assertive-base, r-assertive-properties, r-codetools
Run Dependencies:
r, r-assertive-base, r-assertive-properties, r-codetools
Description:
Assertions to Check Types of Variables. A set of predicates and assertions for checking the types of variables. This is mainly for use by other package developers who want to include run-time testing features in their own packages. End-users will usually want to use assertive directly.

r-assertthat

Homepage:
Spack package:
Versions:
0.2.1, 0.2.0, 0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Easy Pre and Post Assertions. An extension to stopifnot() that makes it easy to declare the pre and post conditions that you code should satisfy, while also producing friendly error messages so that your users know what's gone wrong.

r-backports

Homepage:
Spack package:
Versions:
1.4.1, 1.4.0, 1.2.1, 1.1.4, 1.1.3, 1.1.1, 1.1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Reimplementations of Functions Introduced Since R-3.0.0. Functions introduced or changed since R v3.0.0 are re-implemented in this package. The backports are conditionally exported in order to let R resolve the function name to either the implemented backport, or the respective base version, if available. Package developers can make use of new functions or arguments by selectively importing specific backports to support older installations.

r-bamsignals

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.16.0, 1.14.0, 1.12.1, 1.10.0, 1.8.0
Build Dependencies:
r, r-biocgenerics, r-rcpp, r-iranges, r-genomicranges, r-zlibbioc, r-rhtslib, gmake, curl
Link Dependencies:
curl
Run Dependencies:
r, r-biocgenerics, r-rcpp, r-iranges, r-genomicranges, r-zlibbioc, r-rhtslib
Description:
Extract read count signals from bam files. This package allows to efficiently obtain count vectors from indexed bam files. It counts the number of reads in given genomic ranges and it computes reads profiles and coverage profiles. It also handles paired- end data.

r-base64

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
r, r-openssl
Run Dependencies:
r, r-openssl
Description:
Base64 Encoder and Decoder. Compatibility wrapper to replace the orphaned package by Romain Francois. New applications should use the 'openssl' or 'base64enc' package instead.

r-base64enc

Homepage:
Spack package:
Versions:
0.1-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for base64 encoding. This package provides tools for handling base64 encoding. It is more flexible than the orphaned base64 package.

r-bayesm

Homepage:
Spack package:
Versions:
3.1-4, 3.1-3, 3.1-2, 3.1-1, 3.1-0.1
Build Dependencies:
r, r-rcpp, r-rcpparmadillo
Run Dependencies:
r, r-rcpp, r-rcpparmadillo
Description:
Bayesian Inference for Marketing/Micro-Econometrics. Covers many important models used in marketing and micro-econometrics applications. The package includes: Bayes Regression (univariate or multivariate dep var), Bayes Seemingly Unrelated Regression (SUR), Binary and Ordinal Probit, Multinomial Logit (MNL) and Multinomial Probit (MNP), Multivariate Probit, Negative Binomial (Poisson) Regression, Multivariate Mixtures of Normals (including clustering), Dirichlet Process Prior Density Estimation with normal base, Hierarchical Linear Models with normal prior and covariates, Hierarchical Linear Models with a mixture of normals prior and covariates, Hierarchical Multinomial Logits with a mixture of normals prior and covariates, Hierarchical Multinomial Logits with a Dirichlet Process prior and covariates, Hierarchical Negative Binomial Regression Models, Bayesian analysis of choice-based conjoint data, Bayesian treatment of linear instrumental variables models, Analysis of Multivariate Ordinal survey data with scale usage heterogeneity (as in Rossi et al, JASA (01)), Bayesian Analysis of Aggregate Random Coefficient Logit Models as in BLP (see Jiang, Manchanda, Rossi 2009) For further reference, consult our book, Bayesian Statistics and Marketing by Rossi, Allenby and McCulloch (Wiley 2005) and Bayesian Non- and Semi-Parametric Methods and Applications (Princeton U Press 2014).

r-bayesplot

Homepage:
Spack package:
Versions:
1.8.1, 1.8.0
Build Dependencies:
r, r-dplyr, r-ggplot2, r-ggridges, r-glue, r-reshape2, r-rlang, r-tibble, r-tidyselect
Run Dependencies:
r, r-dplyr, r-ggplot2, r-ggridges, r-glue, r-reshape2, r-rlang, r-tibble, r-tidyselect
Description:
Plotting for Bayesian Models. Plotting functions for posterior analysis, MCMC diagnostics, prior and posterior predictive checks, and other visualizations to support the applied Bayesian workflow advocated in Gabry, Simpson, Vehtari, Betancourt, and Gelman (2019) <doi:10.1111/rssa.12378>. The package is designed not only to provide convenient functionality for users, but also a common set of functions that can be easily used by developers working on a variety of R packages for Bayesian modeling, particularly (but not exclusively) packages interfacing with 'Stan'.

r-bbmisc

Homepage:
Spack package:
Versions:
1.11
Build Dependencies:
r, r-checkmate
Run Dependencies:
r, r-checkmate
Description:
Miscellaneous Helper Functions for B. Bischl. Miscellaneous helper functions for and from B. Bischl and some other guys, mainly for package development.

r-beachmat

Homepage:
Spack package:
Versions:
2.10.0, 2.6.4, 2.0.0, 1.4.0, 1.2.1, 1.0.2
Build Dependencies:
r, r-delayedarray, r-biocgenerics, r-matrix, r-rcpp, r-rhdf5lib, r-hdf5array, r-rhdf5
Run Dependencies:
r, r-delayedarray, r-biocgenerics, r-matrix, r-rcpp, r-rhdf5lib, r-hdf5array, r-rhdf5
Description:
Compiling Bioconductor to Handle Each Matrix Type. Provides a consistent C++ class interface for reading from and writing data to a variety of commonly used matrix types. Ordinary matrices and several sparse/dense Matrix classes are directly supported, third-party S4 classes may be supported by external linkage, while all other matrices are handled by DelayedArray block processing.

r-beanplot

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot). Plots univariate comparison graphs, an alternative to boxplot/stripchart/violin plot.

r-beeswarm

Homepage:
Spack package:
Versions:
0.4.0, 0.2.3
Build Dependencies:
r
Run Dependencies:
r
Description:
The Bee Swarm Plot, an Alternative to Stripchart. The bee swarm plot is a one-dimensional scatter plot like "stripchart", but with closely- packed, non-overlapping points.

r-bfast

Homepage:
Spack package:
Versions:
1.6.1, 1.5.7
Build Dependencies:
r, r-strucchangercpp, r-zoo, r-forecast, r-rcpp, r-rdpack, r-strucchange, r-sp, r-raster
Run Dependencies:
r, r-strucchangercpp, r-zoo, r-forecast, r-rcpp, r-rdpack, r-strucchange, r-sp, r-raster
Description:
Breaks for Additive Season and Trend. Decomposition of time series into trend, seasonal, and remainder components with methods for detecting and characterizing abrupt changes within the trend and seasonal components. 'BFAST' can be used to analyze different types of satellite image time series and can be applied to other disciplines dealing with seasonal or non-seasonal time series, such as hydrology, climatology, and econometrics. The algorithm can be extended to label detected changes with information on the parameters of the fitted piecewise linear models. 'BFAST' monitoring functionality is described in Verbesselt et al. (2010) <doi:10.1016/j.rse.2009.08.014>. 'BFAST monitor' provides functionality to detect disturbance in near real-time based on 'BFAST'- type models, and is described in Verbesselt et al. (2012) <doi:10.1016/j.rse.2012.02.022>. 'BFAST Lite' approach is a flexible approach that handles missing data without interpolation, and will be described in an upcoming paper. Furthermore, different models can now be used to fit the time series data and detect structural changes (breaks).

r-bfastspatial

Homepage:
Spack package:
Versions:
0.6.2
Build Dependencies:
r, r-raster, r-bfast, r-gdalutils, r-stringr, r-rgdal, r-bitops, r-zoo, r-sp
Run Dependencies:
r, r-raster, r-bfast, r-gdalutils, r-stringr, r-rgdal, r-bitops, r-zoo, r-sp
Description:
Pre-process gridded time-series data in order for them to be analyzed with change detection algorithms such as bfast. Uses classes from the raster package and includes utilities to run the algorithms and post- process the results.

r-bglr

Homepage:
Spack package:
Versions:
1.0.9, 1.0.8
Build Dependencies:
r, r-truncnorm, r-mass
Run Dependencies:
r, r-truncnorm, r-mass
Description:
Bayesian Generalized Linear Regression.

r-bh

Homepage:
Spack package:
Versions:
1.78.0-0, 1.75.0-0, 1.72.0-3, 1.69.0-1, 1.65.0-1, 1.60.0-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Boost C++ Header Files. Boost provides free peer-reviewed portable C++ source libraries. A large part of Boost is provided as C++ template code which is resolved entirely at compile-time without linking. This package aims to provide the most useful subset of Boost libraries for template use among CRAN package. By placing these libraries in this package, we offer a more efficient distribution system for CRAN as replication of this code in the sources of other packages is avoided. As of release 1.60.0-2, the following Boost libraries are included: 'algorithm' 'any' 'bimap' 'bind' 'circular_buffer' 'concept' 'config' 'container' 'date'_'time' 'detail' 'dynamic_bitset' 'exception' 'filesystem' 'flyweight' 'foreach' 'functional' 'fusion' 'geometry' 'graph' 'heap' 'icl' 'integer' 'interprocess' 'intrusive' 'io' 'iostreams' 'iterator' 'math' 'move' 'mpl' 'multiprcecision' 'numeric' 'pending' 'phoenix' 'preprocessor' 'random' 'range' 'smart_ptr' 'spirit' 'tuple' 'type_trains' 'typeof' 'unordered' 'utility' 'uuid'.

r-biasedurn

Homepage:
Spack package:
Versions:
1.07
Build Dependencies:
r
Run Dependencies:
r
Description:
Biased Urn Model Distributions. Statistical models of biased sampling in the form of univariate and multivariate noncentral hypergeometric distributions, including Wallenius' noncentral hypergeometric distribution and Fisher's noncentral hypergeometric distribution (also called extended hypergeometric distribution). See vignette("UrnTheory") for explanation of these distributions.

r-bibtex

Homepage:
Spack package:
Versions:
0.4.2.3, 0.4.2
Build Dependencies:
r, r-stringr
Run Dependencies:
r, r-stringr
Description:
Bibtex Parser. Utility to parse a bibtex file.

r-bigalgebra

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0, 0.8.4.2
Build Dependencies:
r, r-bigmemory, r-bh, r-rcpp
Run Dependencies:
r, r-bigmemory, r-bh, r-rcpp
Description:
'BLAS' and 'LAPACK' Routines for Native R Matrices and 'big.matrix' Objects. Provides arithmetic functions for R matrix and 'big.matrix' objects as well as functions for QR factorization, Cholesky factorization, General eigenvalue, and Singular value decomposition (SVD). A method matrix multiplication and an arithmetic method -for matrix addition, matrix difference- allows for mixed type operation -a matrix class object and a big.matrix class object- and pure type operation for two big.matrix class objects.

r-bigmemory

Homepage:
Spack package:
Versions:
4.5.36
Build Dependencies:
r, r-bh, r-rcpp, r-bigmemory-sri
Run Dependencies:
r, r-bh, r-rcpp, r-bigmemory-sri
Description:
Manage Massive Matrices with Shared Memory and Memory-Mapped. Files Create, store, access, and manipulate massive matrices. Matrices are allocated to shared memory and may use memory-mapped files. Packages 'biganalytics', 'bigtabulate', 'synchronicity', and 'bigalgebra' provide advanced functionality.

r-bigmemory-sri

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
r
Run Dependencies:
r
Description:
A shared resource interface for Bigmemory Project packages. This package provides a shared resource interface for the bigmemory and synchronicity packages.

r-bindr

Homepage:
Spack package:
Versions:
0.1.1, 0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Parametrized Active Bindings. Provides a simple interface for creating active bindings where the bound function accepts additional arguments.

r-bindrcpp

Homepage:
Spack package:
Versions:
0.2.2, 0.2
Build Dependencies:
r, r-rcpp, r-bindr, r-plogr
Run Dependencies:
r, r-rcpp, r-bindr, r-plogr
Description:
An 'Rcpp' Interface to Active Bindings. Provides an easy way to fill an environment with active bindings that call a C++ function.

r-bio3d

Homepage:
Spack package:
Versions:
2.4-2, 2.4-1, 2.3-4
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Biological Structure Analysis. Utilities to process, organize and explore protein structure, sequence and dynamics data. Features include the ability to read and write structure, sequence and dynamic trajectory data, perform sequence and structure database searches, data summaries, atom selection, alignment, superposition, rigid core identification, clustering, torsion analysis, distance matrix analysis, structure and sequence conservation analysis, normal mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal mode and molecular dynamics data. In addition, various utility functions are provided to enable the statistical and graphical power of the R environment to work with biological sequence and structural data. Please refer to the URLs below for more information.

r-biobase

Homepage:
Spack package:
Versions:
2.54.0, 2.50.0, 2.44.0, 2.42.0, 2.40.0, 2.38.0, 2.36.2
Build Dependencies:
r, r-biocgenerics
Run Dependencies:
r, r-biocgenerics
Description:
Biobase: Base functions for Bioconductor. Functions that are needed by many other packages or which replace R functions.

r-biocfilecache

Homepage:
Spack package:
Versions:
2.2.1, 1.14.0, 1.8.0, 1.6.0, 1.4.0, 1.2.3, 1.0.1
Build Dependencies:
r, r-dplyr, r-dbplyr, r-rsqlite, r-dbi, r-rappdirs, r-filelock, r-curl, r-httr
Run Dependencies:
r, r-dplyr, r-dbplyr, r-rsqlite, r-dbi, r-rappdirs, r-filelock, r-curl, r-httr
Description:
Manage Files Across Sessions. This package creates a persistent on-disk cache of files that the user can add, update, and retrieve. It is useful for managing resources (such as custom Txdb objects) that are costly or difficult to create, web resources, and data files used across sessions.

r-biocgenerics

Homepage:
Spack package:
Versions:
0.40.0, 0.36.0, 0.34.0, 0.30.0, 0.28.0, 0.26.0, 0.24.0, 0.22.1
Build Dependencies:
r
Run Dependencies:
r
Description:
S4 generic functions used in Bioconductor. The package defines S4 generic functions used in Bioconductor.

r-biocinstaller

Homepage:
Spack package:
Versions:
1.33.1, 1.32.1, 1.30.0, 1.28.0, 1.26.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Install/Update Bioconductor, CRAN, and github Packages. This package is used to install and update Bioconductor, CRAN, and (some) github packages.

r-biocio

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
r, r-biocgenerics, r-s4vectors
Run Dependencies:
r, r-biocgenerics, r-s4vectors
Description:
Standard Input and Output for Bioconductor Packages. Implements `import()` and `export()` standard generics for importing and exporting biological data formats. `import()` supports whole-file as well as chunk-wise iterative import. The `import()` interface optionally provides a standard mechanism for 'lazy' access via `filter()` (on row or element-like components of the file resource), `select()` (on column- like components of the file resource) and `collect()`. The `import()` interface optionally provides transparent access to remote (e.g. via https) as well as local access. Developers can register a file extension, e.g., `.loom` for dispatch from character-based URIs to specific `import()` / `export()` methods based on classes representing file types, e.g., `LoomFile()`.

r-biocmanager

Homepage:
Spack package:
Versions:
1.30.16, 1.30.10
Build Dependencies:
r
Run Dependencies:
r
Description:
Access the Bioconductor Project Package Repository. A convenient tool to install and update Bioconductor packages.

r-biocneighbors

Homepage:
Spack package:
Versions:
1.12.0, 1.8.2, 1.2.0, 1.0.0
Build Dependencies:
r, r-rcpp, r-s4vectors, r-biocparallel, r-matrix, r-rcpphnsw, r-rcppannoy, r-biocgenerics
Run Dependencies:
r, r-rcpp, r-s4vectors, r-biocparallel, r-matrix, r-rcpphnsw, r-rcppannoy, r-biocgenerics
Description:
Nearest Neighbor Detection for Bioconductor Packages. Implements exact and approximate methods for nearest neighbor detection, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k-means for k-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance.

r-biocparallel

Homepage:
Spack package:
Versions:
1.28.3, 1.24.1, 1.18.1, 1.16.6, 1.14.2, 1.12.0, 1.10.1
Build Dependencies:
r, r-futile-logger, r-snow, r-bh
Run Dependencies:
r, r-futile-logger, r-snow, r-bh
Description:
Bioconductor facilities for parallel evaluation. This package provides modified versions and novel implementation of functions for parallel evaluation, tailored to use with Bioconductor objects.

r-biocsingular

Homepage:
Spack package:
Versions:
1.10.0, 1.6.0, 1.0.0
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-matrix, r-delayedarray, r-biocparallel, r-scaledmatrix, r-irlba, r-rsvd, r-rcpp, r-beachmat
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-matrix, r-delayedarray, r-biocparallel, r-scaledmatrix, r-irlba, r-rsvd, r-rcpp, r-beachmat
Description:
Singular Value Decomposition for Bioconductor Packages. Implements exact and approximate methods for singular value decomposition and principal components analysis, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Where possible, parallelization is achieved using the BiocParallel framework.

r-biocstyle

Homepage:
Spack package:
Versions:
2.22.0, 2.18.1, 2.12.0, 2.10.0, 2.8.2, 2.6.1, 2.4.1
Build Dependencies:
r, r-bookdown, r-knitr, r-rmarkdown, r-yaml, r-biocmanager
Run Dependencies:
r, r-bookdown, r-knitr, r-rmarkdown, r-yaml, r-biocmanager
Description:
Standard styles for vignettes and other Bioconductor documents. Provides standard formatting styles for Bioconductor PDF and HTML documents. Package vignettes illustrate use and functionality.

r-biocversion

Homepage:
Spack package:
Versions:
3.14.0, 3.12.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Set the appropriate version of Bioconductor packages. This package provides repository information for the appropriate version of Bioconductor.

r-biom-utils

Homepage:
Spack package:
Versions:
0.9
Build Dependencies:
r
Run Dependencies:
r
Description:
Utilities for the BIOM (Biological Observation Matrix) Format. Provides utilities to facilitate import, export and computation with the BIOM (Biological Observation Matrix) format (https://biom-format.org/).

r-biomart

Homepage:
Spack package:
Versions:
2.50.3, 2.46.2, 2.40.5, 2.38.0, 2.36.1, 2.34.2, 2.32.1
Build Dependencies:
r, r-xml, r-annotationdbi, r-progress, r-stringr, r-httr, r-digest, r-biocfilecache, r-rappdirs, r-xml2, r-rcurl, r-openssl
Run Dependencies:
r, r-xml, r-annotationdbi, r-progress, r-stringr, r-httr, r-digest, r-biocfilecache, r-rappdirs, r-xml2, r-rcurl, r-openssl
Description:
Interface to BioMart databases (i.e. Ensembl). In recent years a wealth of biological data has become available in public data repositories. Easy access to these valuable data resources and firm integration with data analysis is needed for comprehensive bioinformatics data analysis. biomaRt provides an interface to a growing collection of databases implementing the BioMart software suite (<http://www.biomart.org>). The package enables retrieval of large amounts of data in a uniform way without the need to know the underlying database schemas or write complex SQL queries. The most prominent examples of BioMart databases are maintain by Ensembl, which provides biomaRt users direct access to a diverse set of data and enables a wide range of powerful online queries from gene annotation to database mining.

r-biomartr

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
r, r-biomart, r-biostrings, r-curl, r-tibble, r-jsonlite, r-data-table, r-dplyr, r-readr, r-downloader, r-rcurl, r-xml, r-httr, r-stringr, r-purrr, r-r-utils, r-philentropy, r-fs
Run Dependencies:
r, r-biomart, r-biostrings, r-curl, r-tibble, r-jsonlite, r-data-table, r-dplyr, r-readr, r-downloader, r-rcurl, r-xml, r-httr, r-stringr, r-purrr, r-r-utils, r-philentropy, r-fs
Description:
Genomic Data Retrieval. Perform large scale genomic data retrieval and functional annotation retrieval. This package aims to provide users with a standardized way to automate genome, proteome, 'RNA', coding sequence ('CDS'), 'GFF', and metagenome retrieval from 'NCBI RefSeq', 'NCBI Genbank', 'ENSEMBL', 'ENSEMBLGENOMES', and 'UniProt' databases. Furthermore, an interface to the 'BioMart' database (Smedley et al. (2009) <doi:10.1186/1471-2164-10-22>) allows users to retrieve functional annotation for genomic loci. In addition, users can download entire databases such as 'NCBI RefSeq' (Pruitt et al. (2007) <doi:10.1093/nar/gkl842>), 'NCBI nr', 'NCBI nt', 'NCBI Genbank' (Benson et al. (2013) <doi:10.1093/nar/gks1195>), etc. as well as 'ENSEMBL' and 'ENSEMBLGENOMES' with only one command.

r-biomformat

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0, 1.12.0, 1.10.1, 1.8.0, 1.6.0, 1.4.0
Build Dependencies:
r, r-plyr, r-jsonlite, r-matrix, r-rhdf5
Run Dependencies:
r, r-plyr, r-jsonlite, r-matrix, r-rhdf5
Description:
An interface package for the BIOM file format. This is an R package for interfacing with the BIOM format. This package includes basic tools for reading biom-format files, accessing and subsetting data tables from a biom object (which is more complex than a single table), as well as limited support for writing a biom-object back to a biom-format file. The design of this API is intended to match the python API and other tools included with the biom-format project, but with a decidedly "R flavor" that should be familiar to R users. This includes S4 classes and methods, as well as extensions of common core functions/methods.

r-biostrings

Homepage:
Spack package:
Versions:
2.62.0, 2.58.0, 2.52.0, 2.50.2, 2.48.0, 2.46.0, 2.44.2
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-genomeinfodb, r-crayon
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-genomeinfodb, r-crayon
Description:
Efficient manipulation of biological strings. Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or sets of sequences.

r-biovizbase

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.1, 1.28.2, 1.26.0, 1.24.0
Build Dependencies:
r, r-scales, r-hmisc, r-rcolorbrewer, r-dichromat, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-genomicalignments, r-genomicfeatures, r-annotationdbi, r-variantannotation, r-ensembldb, r-annotationfilter, r-rlang
Run Dependencies:
r, r-scales, r-hmisc, r-rcolorbrewer, r-dichromat, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-genomicalignments, r-genomicfeatures, r-annotationdbi, r-variantannotation, r-ensembldb, r-annotationfilter, r-rlang
Description:
Basic graphic utilities for visualization of genomic data. The biovizBase package is designed to provide a set of utilities, color schemes and conventions for genomic data. It serves as the base for various high-level packages for biological data visualization. This saves development effort and encourages consistency.

r-bit

Homepage:
Spack package:
Versions:
4.0.4, 1.1-14, 1.1-12
Build Dependencies:
r
Run Dependencies:
r
Description:
Classes and Methods for Fast Memory-Efficient Boolean Selections. Provided are classes for boolean and skewed boolean vectors, fast boolean methods, fast unique and non-unique integer sorting, fast set operations on sorted and unsorted sets of integers, and foundations for ff (range index, compression, chunked processing).

r-bit64

Homepage:
Spack package:
Versions:
4.0.5, 0.9-7
Build Dependencies:
r, r-bit
Run Dependencies:
r, r-bit
Description:
A S3 Class for Vectors of 64bit Integers. Package 'bit64' provides serializable S3 atomic 64bit (signed) integers. These are useful for handling database keys and exact counting in +-2^63. WARNING: do not use them as replacement for 32bit integers, integer64 are not supported for subscripting by R-core and they have different semantics when combined with double, e.g. integer64 + double => integer64. Class integer64 can be used in vectors, matrices, arrays and data.frames. Methods are available for coercion from and to logicals, integers, doubles, characters and factors as well as many elementwise and summary functions. Many fast algorithmic operations such as 'match' and 'order' support inter- active data exploration and manipulation and optionally leverage caching.

r-bitops

Homepage:
Spack package:
Versions:
1.0-7, 1.0-6
Build Dependencies:
r
Run Dependencies:
r
Description:
Bitwise Operations. Functions for bitwise operations on integer vectors.

r-blavaan

Homepage:
Spack package:
Versions:
0.4-1, 0.3-18, 0.3-15
Build Dependencies:
r, r-lavaan, r-rcpp, r-mcmcpack, r-coda, r-mnormt, r-nonnest2, r-loo, r-rstan, r-rstantools, r-rcppparallel, r-bayesplot, r-matrix, r-future-apply, r-tmvnsim, r-stanheaders, r-bh, r-rcppeigen, gmake
Run Dependencies:
r, r-lavaan, r-rcpp, r-mcmcpack, r-coda, r-mnormt, r-nonnest2, r-loo, r-rstan, r-rstantools, r-rcppparallel, r-bayesplot, r-matrix, r-future-apply, r-tmvnsim, r-stanheaders, r-bh, r-rcppeigen
Description:
Bayesian Latent Variable Analysis. Fit a variety of Bayesian latent variable models, including confirmatory factor analysis, structural equation models, and latent growth curve models. References: Merkle & Rosseel (2018) <doi:10.18637/jss.v085.i04>; Merkle et al. (2021) <doi:10.18637/jss.v100.i06>.

r-blob

Homepage:
Spack package:
Versions:
1.2.2, 1.2.1, 1.2.0, 1.1.0
Build Dependencies:
r, r-rlang, r-vctrs, r-prettyunits, r-tibble
Run Dependencies:
r, r-rlang, r-vctrs, r-prettyunits, r-tibble
Description:
A Simple S3 Class for Representing Vectors of Binary Data ('BLOBS'). R's raw vector is useful for storing a single binary object. What if you want to put a vector of them in a data frame? The blob package provides the blob object, a list of raw vectors, suitable for use as a column in data frame.

r-blockmodeling

Homepage:
Spack package:
Versions:
1.0.5, 1.0.0, 0.3.4, 0.3.1
Build Dependencies:
r, r-matrix, r-doparallel, r-dorng, r-foreach
Run Dependencies:
r, r-matrix, r-doparallel, r-dorng, r-foreach
Description:
Generalized and Classical Blockmodeling of Valued Networks. This is primarily meant as an implementation of generalized blockmodeling for valued networks.

r-bmp

Homepage:
Spack package:
Versions:
0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Read Windows Bitmap (BMP) Images. Reads Windows BMP format images. Currently limited to 8 bit greyscale images and 24,32 bit (A)RGB images. Pure R implementation without external dependencies.

r-bookdown

Homepage:
Spack package:
Versions:
0.24, 0.21, 0.12, 0.5
Build Dependencies:
r, r-htmltools, r-knitr, r-rmarkdown, r-jquerylib, r-xfun, r-tinytex, r-yaml, pandoc
Link Dependencies:
pandoc
Run Dependencies:
r, r-htmltools, r-knitr, r-rmarkdown, r-jquerylib, r-xfun, r-tinytex, r-yaml
Description:
Authoring Books and Technical Documents with R Markdown. Output formats and utilities for authoring books and technical documents with R Markdown.

r-boot

Homepage:
Spack package:
Versions:
1.3-28, 1.3-25, 1.3-23, 1.3-22, 1.3-20, 1.3-18
Build Dependencies:
r
Run Dependencies:
r
Description:
Bootstrap Functions (Originally by Angelo Canty for S). Functions and datasets for bootstrapping from the book "Bootstrap Methods and Their Application" by A. C. Davison and D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.

r-boruta

Homepage:
Spack package:
Versions:
7.0.0, 6.0.0
Build Dependencies:
r, r-ranger
Run Dependencies:
r, r-ranger
Description:
Wrapper Algorithm for All Relevant Feature Selection. An all relevant feature selection wrapper algorithm. It finds relevant features by comparing original attributes' importance with importance achievable at random, estimated using their permuted copies (shadows).

r-brew

Homepage:
Spack package:
Versions:
1.0-6
Build Dependencies:
r
Run Dependencies:
r
Description:
Templating Framework for Report Generation. Brew implements a templating framework for mixing text and R code for report generation. brew template syntax is similar to PHP, Ruby's erb module, Java Server Pages, and Python's psp module.

r-bridgesampling

Homepage:
Spack package:
Versions:
1.1-2
Build Dependencies:
r, r-mvtnorm, r-matrix, r-brobdingnag, r-stringr, r-coda, r-scales
Run Dependencies:
r, r-mvtnorm, r-matrix, r-brobdingnag, r-stringr, r-coda, r-scales
Description:
Bridge Sampling for Marginal Likelihoods and Bayes Factors. Provides functions for estimating marginal likelihoods, Bayes factors, posterior model probabilities, and normalizing constants in general, via different versions of bridge sampling (Meng & Wong, 1996, <http://www3.stat.sinica.edu.tw/statistica/j6n4/j6n43/j6n43.htm>). Gronau, Singmann, & Wagenmakers (2020) <doi:10.18637/jss.v092.i10>.

r-brio

Homepage:
Spack package:
Versions:
1.1.3, 1.1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Basic R Input Output. Functions to handle basic input output, these functions always read and write UTF-8 (8-bit Unicode Transformation Format) files and provide more explicit control over line endings.

r-brms

Homepage:
Spack package:
Versions:
2.16.3, 2.16.1, 2.15.0
Build Dependencies:
r, r-rcpp, r-rstan, r-ggplot2, r-loo, r-posterior, r-matrix, r-mgcv, r-rstantools, r-bayesplot, r-shinystan, r-bridgesampling, r-glue, r-future, r-matrixstats, r-nleqslv, r-nlme, r-coda, r-abind, r-backports, r-projpred
Run Dependencies:
r, r-rcpp, r-rstan, r-ggplot2, r-loo, r-posterior, r-matrix, r-mgcv, r-rstantools, r-bayesplot, r-shinystan, r-bridgesampling, r-glue, r-future, r-matrixstats, r-nleqslv, r-nlme, r-coda, r-abind, r-backports, r-projpred
Description:
Bayesian Regression Models using 'Stan'. Fit Bayesian generalized (non-)linear multivariate multilevel models using 'Stan' for full Bayesian inference. A wide range of distributions and link functions are supported, allowing users to fit - among others - linear, robust linear, count data, survival, response times, ordinal, zero-inflated, hurdle, and even self-defined mixture models all in a multilevel context. Further modeling options include non-linear and smooth terms, auto- correlation structures, censored data, meta-analytic standard errors, and quite a few more. In addition, all parameters of the response distribution can be predicted in order to perform distributional regression. Prior specifications are flexible and explicitly encourage users to apply prior distributions that actually reflect their beliefs. Model fit can easily be assessed and compared with posterior predictive checks and leave-one-out cross-validation. References: Burkner (2017) <doi:10.18637/jss.v080.i01>; Burkner (2018) <doi:10.32614/RJ-2018-017>; Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>.

r-brobdingnag

Homepage:
Spack package:
Versions:
1.2-7, 1.2-6
Build Dependencies:
r
Run Dependencies:
r
Description:
Very Large Numbers in R. Handles very large numbers in R. Real numbers are held using their natural logarithms, plus a logical flag indicating sign. The package includes a vignette that gives a step-by-step introduction to using S4 methods.

r-broom

Homepage:
Spack package:
Versions:
0.7.12, 0.7.11, 0.7.10, 0.7.9, 0.7.3, 0.5.2, 0.5.1, 0.4.2
Build Dependencies:
r, r-backports, r-dplyr, r-ellipsis, r-generics, r-glue, r-purrr, r-rlang, r-stringr, r-tibble, r-tidyr, r-ggplot2, r-plyr, r-psych, r-reshape2, r-nlme
Run Dependencies:
r, r-backports, r-dplyr, r-ellipsis, r-generics, r-glue, r-purrr, r-rlang, r-stringr, r-tibble, r-tidyr, r-ggplot2, r-plyr, r-psych, r-reshape2, r-nlme
Description:
Convert Statistical Objects into Tidy Tibbles. Summarizes key information about statistical objects in tidy tibbles. This makes it easy to report results, create plots and consistently work with large numbers of models at once. Broom provides three verbs that each provide different types of information about a model. tidy() summarizes information about model components such as coefficients of a regression. glance() reports information about an entire model, such as goodness of fit measures like AIC and BIC. augment() adds information about individual observations to a dataset, such as fitted values or influence measures.

r-bsgenome

Homepage:
Spack package:
Versions:
1.62.0, 1.58.0, 1.52.0, 1.50.0, 1.48.0, 1.46.0, 1.44.2
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-biostrings, r-rtracklayer, r-matrixstats, r-xvector, r-rsamtools
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-biostrings, r-rtracklayer, r-matrixstats, r-xvector, r-rsamtools
Description:
Software infrastructure for efficient representation of full genomes and their SNPs. Infrastructure shared by all the Biostrings-based genome data packages.

r-bsgenome-hsapiens-ucsc-hg19

Homepage:
Spack package:
Versions:
1.4.3, 1.4.0
Build Dependencies:
r, r-bsgenome
Run Dependencies:
r, r-bsgenome
Description:
Full genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13). Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg19, Feb. 2009) and stored in Biostrings objects.

r-bslib

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
r, r-htmltools, r-jsonlite, r-sass, r-jquerylib, r-rlang
Run Dependencies:
r, r-htmltools, r-jsonlite, r-sass, r-jquerylib, r-rlang
Description:
Custom 'Bootstrap' 'Sass' Themes for 'shiny' and 'rmarkdown'. Simplifies custom 'CSS' styling of both 'shiny' and 'rmarkdown' via 'Bootstrap' 'Sass'. Supports both 'Bootstrap' 3 and 4 as well as their various 'Bootswatch' themes. An interactive widget is also provided for previewing themes in real time.

r-bumphunter

Homepage:
Spack package:
Versions:
1.36.0, 1.32.0, 1.26.0, 1.24.5, 1.22.0, 1.20.0, 1.16.0
Build Dependencies:
r, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-foreach, r-iterators, r-locfit, r-matrixstats, r-limma, r-dorng, r-biocgenerics, r-genomicfeatures, r-annotationdbi
Run Dependencies:
r, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-foreach, r-iterators, r-locfit, r-matrixstats, r-limma, r-dorng, r-biocgenerics, r-genomicfeatures, r-annotationdbi
Description:
Bump Hunter. Tools for finding bumps in genomic data

r-bwstest

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
r, r-memoise, r-rcpp
Run Dependencies:
r, r-memoise, r-rcpp
Description:
Baumgartner Weiss Schindler Test of Equal Distributions. Performs the 'Baumgartner-Weiss-Schindler' two-sample test of equal probability distributions, <doi:10.2307/2533862>. Also performs similar rank-based tests for equal probability distributions due to Neuhauser <doi:10.1080/10485250108832874> and Murakami <doi:10.1080/00949655.2010.551516>.

r-c50

Homepage:
Spack package:
Versions:
0.1.5, 0.1.3.1, 0.1.2, 0.1.1, 0.1.0-24
Build Dependencies:
r, r-partykit, r-cubist
Run Dependencies:
r, r-partykit, r-cubist
Description:
C5.0 Decision Trees and Rule-Based Models. C5.0 decision trees and rule- based models for pattern recognition that extend the work of Quinlan (1993, ISBN:1-55860-238-0).

r-ca

Homepage:
Spack package:
Versions:
0.71.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Simple, Multiple and Joint Correspondence Analysis. Computation and visualization of simple, multiple and joint correspondence analysis.

r-cachem

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
r, r-rlang, r-fastmap
Run Dependencies:
r, r-rlang, r-fastmap
Description:
Cache R Objects with Automatic Pruning. Key-value stores with automatic pruning. Caches can limit either their total size or the age of the oldest object (or both), automatically pruning objects to maintain the constraints.

r-cairo

Homepage:
Spack package:
Versions:
1.5-14, 1.5-12.2, 1.5-10, 1.5-9
Build Dependencies:
r, cairo, libxt
Link Dependencies:
cairo, libxt
Run Dependencies:
r
Description:
R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output. R graphics device using cairographics library that can be used to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environments (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.

r-callr

Homepage:
Spack package:
Versions:
3.7.0, 3.5.1, 3.4.3, 3.3.1, 3.2.0, 3.0.0, 1.0.0
Build Dependencies:
r, r-processx, r-r6
Run Dependencies:
r, r-processx, r-r6
Description:
Call R from R. It is sometimes useful to perform a computation in a separate R process, without affecting the current R process at all. This packages does exactly that.

r-car

Homepage:
Spack package:
Versions:
3.0-12, 3.0-11, 3.0-10, 3.0-3, 3.0-2, 2.1-4, 2.1-2
Build Dependencies:
r, r-cardata, r-abind, r-mass, r-mgcv, r-nnet, r-pbkrtest, r-quantreg, r-maptools, r-rio, r-lme4, r-nlme
Run Dependencies:
r, r-cardata, r-abind, r-mass, r-mgcv, r-nnet, r-pbkrtest, r-quantreg, r-maptools, r-rio, r-lme4, r-nlme
Description:
Companion to Applied Regression. Functions and Datasets to Accompany J. Fox and S. Weisberg, An R Companion to Applied Regression, Second Edition, Sage, 2011.

r-caracas

Homepage:
Spack package:
Versions:
1.1.1, 1.0.1, 1.0.0
Build Dependencies:
r, r-reticulate, r-magrittr, python
Run Dependencies:
r, r-reticulate, r-magrittr, python
Description:
Computer Algebra. Computer algebra via the 'SymPy' library (<https://www.sympy.org/>). This makes it possible to solve equations symbolically, find symbolic integrals, symbolic sums and other important quantities.

r-cardata

Homepage:
Spack package:
Versions:
3.0-5, 3.0-4, 3.0-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Companion to Applied Regression Data Sets. Datasets to Accompany J. Fox and S. Weisberg, An R Companion to Applied Regression, Third Edition, Sage (2019).

r-caret

Homepage:
Spack package:
Versions:
6.0-90, 6.0-86, 6.0-84, 6.0-83, 6.0-73, 6.0-70
Build Dependencies:
r, r-ggplot2, r-lattice, r-e1071, r-foreach, r-modelmetrics, r-nlme, r-plyr, r-proc, r-recipes, r-reshape2, r-withr, r-car
Run Dependencies:
r, r-ggplot2, r-lattice, r-e1071, r-foreach, r-modelmetrics, r-nlme, r-plyr, r-proc, r-recipes, r-reshape2, r-withr, r-car
Description:
Classification and Regression Training. Misc functions for training and plotting classification and regression models.

r-caretensemble

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
r, r-pbapply, r-ggplot2, r-digest, r-plyr, r-lattice, r-gridextra, r-data-table, r-caret
Run Dependencies:
r, r-pbapply, r-ggplot2, r-digest, r-plyr, r-lattice, r-gridextra, r-data-table, r-caret
Description:
Ensembles of Caret Models. Functions for creating ensembles of caret models: caretList() and caretStack(). caretList() is a convenience function for fitting multiple caret::train() models to the same dataset. caretStack() will make linear or non-linear combinations of these models, using a caret::train() model as a meta-model, and caretEnsemble() will make a robust linear combination of models using a GLM.

r-caroline

Homepage:
Spack package:
Versions:
0.7.6
Build Dependencies:
r
Run Dependencies:
r
Description:
A Collection of Database, Data Structure, Visualization, andUtility Functions for R. The caroline R library contains dozens of functions useful for: database migration (dbWriteTable2), database style joins & aggregation (nerge, groupBy & bestBy), data structure conversion (nv, tab2df), legend table making (sstable & leghead), plot annotation (labsegs & mvlabs), data visualization (violins, pies & raPlot), character string manipulation (m & pad), file I/O (write.delim), batch scripting and more. The package's greatest contributions lie in the database style merge, aggregation and interface functions as well as in it's extensive use and propagation of row, column and vector names in most functions.

r-category

Homepage:
Spack package:
Versions:
2.60.0, 2.56.0, 2.50.0, 2.48.1, 2.46.0, 2.44.0, 2.42.1
Build Dependencies:
r, r-biocgenerics, r-annotationdbi, r-biobase, r-matrix, r-graph, r-rbgl, r-gseabase, r-genefilter, r-annotate, r-dbi
Run Dependencies:
r, r-biocgenerics, r-annotationdbi, r-biobase, r-matrix, r-graph, r-rbgl, r-gseabase, r-genefilter, r-annotate, r-dbi
Description:
Category Analysis. A collection of tools for performing category (gene set enrichment) analysis.

r-catools

Homepage:
Spack package:
Versions:
1.18.2, 1.18.1, 1.17.1.2, 1.17.1.1, 1.17.1
Build Dependencies:
r, r-bitops
Run Dependencies:
r, r-bitops
Description:
Moving Window Statistics, GIF, Base64, ROC AUC, etc. Contains several basic utility functions including: moving (rolling, running) window statistic functions, read/write for GIF and ENVI binary files, fast calculation of AUC, LogitBoost classifier, base64 encoder/decoder, round-off-error-free sum and cumsum, etc.

r-cca

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
r, r-fields, r-fda
Run Dependencies:
r, r-fields, r-fda
Description:
Canonical Correlation Analysis. Provides a set of functions that extend the 'cancor' function with new numerical and graphical outputs. It also include a regularized extension of the canonical correlation analysis to deal with datasets with more variables than observations.

r-ccp

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Significance Tests for Canonical Correlation Analysis (CCA). Significance tests for canonical correlation analysis, including asymptotic tests and a Monte Carlo method

r-cdcfluview

Homepage:
Spack package:
Versions:
0.9.4, 0.9.2, 0.9.0, 0.7.0
Build Dependencies:
r, r-httr, r-progress, r-dplyr, r-jsonlite, r-tibble, r-sf, r-xml2, r-purrr, r-readr, r-mmwrweek, r-units
Run Dependencies:
r, r-httr, r-progress, r-dplyr, r-jsonlite, r-tibble, r-sf, r-xml2, r-purrr, r-readr, r-mmwrweek, r-units
Description:
Retrieve Flu Season Data from the United States Centers for Disease Control and Prevention ('CDC') 'FluView' Portal. The 'U.S.' Centers for Disease Control ('CDC') maintains a portal <https://gis.cdc.gov/grasp/fluview/fluportaldashboard.html> for accessing state, regional and national influenza statistics as well as Mortality Surveillance Data. The web interface makes it difficult and time-consuming to select and retrieve influenza data. Tools are provided to access the data provided by the portal's underlying 'API'.

r-cellranger

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
r, r-rematch, r-tibble
Run Dependencies:
r, r-rematch, r-tibble
Description:
Translate Spreadsheet Cell Ranges to Rows and Columns. Helper functions to work with spreadsheets and the "A1:D10" style of cell range specification.

r-champ

Homepage:
Spack package:
Versions:
2.24.0, 2.20.1
Build Dependencies:
r, r-minfi, r-champdata, r-dmrcate, r-illumina450probevariants-db, r-illuminahumanmethylationepicmanifest, r-dt, r-rpmm, r-prettydoc, r-hmisc, r-globaltest, r-sva, r-illuminaio, r-rmarkdown, r-illuminahumanmethylation450kmanifest, r-illuminahumanmethylationepicanno-ilm10b4-hg19, r-limma, r-dnacopy, r-preprocesscore, r-impute, r-marray, r-watermelon, r-plyr, r-goseq, r-missmethyl, r-kpmt, r-ggplot2, r-genomicranges, r-qvalue, r-isva, r-doparallel, r-bumphunter, r-quadprog, r-shiny, r-shinythemes, r-plotly, r-rcolorbrewer, r-dendextend, r-matrixstats, r-combinat
Run Dependencies:
r, r-minfi, r-champdata, r-dmrcate, r-illumina450probevariants-db, r-illuminahumanmethylationepicmanifest, r-dt, r-rpmm, r-prettydoc, r-hmisc, r-globaltest, r-sva, r-illuminaio, r-rmarkdown, r-illuminahumanmethylation450kmanifest, r-illuminahumanmethylationepicanno-ilm10b4-hg19, r-limma, r-dnacopy, r-preprocesscore, r-impute, r-marray, r-watermelon, r-plyr, r-goseq, r-missmethyl, r-kpmt, r-ggplot2, r-genomicranges, r-qvalue, r-isva, r-doparallel, r-bumphunter, r-quadprog, r-shiny, r-shinythemes, r-plotly, r-rcolorbrewer, r-dendextend, r-matrixstats, r-combinat
Description:
Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC. The package includes quality control metrics, a selection of normalization methods and novel methods to identify differentially methylated regions and to highlight copy number alterations.

r-champdata

Homepage:
Spack package:
Versions:
2.26.0, 2.22.0
Build Dependencies:
r, r-genomicranges, r-biocgenerics
Run Dependencies:
r, r-genomicranges, r-biocgenerics
Description:
Packages for ChAMP package. Provides datasets needed for ChAMP including a test dataset and blood controls for CNA analysis.

r-checkmate

Homepage:
Spack package:
Versions:
2.0.0, 1.9.4, 1.8.4
Build Dependencies:
r, r-backports
Run Dependencies:
r, r-backports
Description:
Fast and Versatile Argument Checks. Tests and assertions to perform frequent argument checks. A substantial part of the package was written in C to minimize any worries about execution time overhead.

r-checkpoint

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1, 1.0.0, 0.4.10, 0.4.6, 0.4.3, 0.3.15
Build Dependencies:
r, r-jsonlite, r-yaml, r-withr, r-pkgdepends
Run Dependencies:
r, r-jsonlite, r-yaml, r-withr, r-pkgdepends
Description:
Install Packages from Snapshots on the Checkpoint Server for Reproducibility. The goal of checkpoint is to solve the problem of package reproducibility in R. Specifically, checkpoint allows you to install packages as they existed on CRAN on a specific snapshot date as if you had a CRAN time machine. To achieve reproducibility, the checkpoint() function installs the packages required or called by your project and scripts to a local library exactly as they existed at the specified point in time. Only those packages are available to your project, thereby avoiding any package updates that came later and may have altered your results. In this way, anyone using checkpoint's checkpoint() can ensure the reproducibility of your scripts or projects at any time. To create the snapshot archives, once a day (at midnight UTC) Microsoft refreshes the Austria CRAN mirror on the "Microsoft R Archived Network" server (<https://mran.microsoft.com/>). Immediately after completion of the rsync mirror process, the process takes a snapshot, thus creating the archive. Snapshot archives exist starting from 2014-09-17.

r-chemometrics

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.3.9, 1.3.8, 1.3.7
Build Dependencies:
r, r-rpart, r-mclust, r-lars, r-robustbase, r-e1071, r-pls, r-som, r-pcapp, r-class, r-mass, r-nnet
Run Dependencies:
r, r-rpart, r-mclust, r-lars, r-robustbase, r-e1071, r-pls, r-som, r-pcapp, r-class, r-mass, r-nnet
Description:
Multivariate Statistical Analysis in Chemometrics. R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser (2009).

r-chipseq

Homepage:
Spack package:
Versions:
1.44.0, 1.40.0
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomicranges, r-shortread, r-lattice
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomicranges, r-shortread, r-lattice
Description:
A package for analyzing chipseq data, Tools for helping process short read data for chipseq experiments

r-chron

Homepage:
Spack package:
Versions:
2.3-56, 2.3-53, 2.3-52, 2.3-47
Build Dependencies:
r
Run Dependencies:
r
Description:
Chronological objects which can handle dates and times. Provides chronological objects which can handle dates and times.

r-circlize

Homepage:
Spack package:
Versions:
0.4.13, 0.4.12, 0.4.6, 0.4.1, 0.4.0
Build Dependencies:
r, r-globaloptions, r-shape, r-colorspace
Run Dependencies:
r, r-globaloptions, r-shape, r-colorspace
Description:
Circular Visualization. Circular layout is an efficient way for the visualization of huge amounts of information. Here this package provides an implementation of circular layout generation in R as well as an enhancement of available software. The flexibility of the package is based on the usage of low-level graphics functions such that self- defined high-level graphics can be easily implemented by users for specific purposes. Together with the seamless connection between the powerful computational and visual environment in R, it gives users more convenience and freedom to design figures for better understanding complex patterns behind multiple dimensional data. The package is described in Gu et al. 2014 <doi:10.1093/bioinformatics/btu393>.

r-circstats

Homepage:
Spack package:
Versions:
0.2-6
Build Dependencies:
r, r-mass, r-boot
Run Dependencies:
r, r-mass, r-boot
Description:
Circular Statistics, from "Topics in Circular Statistics" (2001). Circular Statistics, from "Topics in Circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.

r-class

Homepage:
Spack package:
Versions:
7.3-20, 7.3-19, 7.3-17, 7.3-15, 7.3-14
Build Dependencies:
r, r-mass
Run Dependencies:
r, r-mass
Description:
Functions for Classification. Various functions for classification, including k-nearest neighbour, Learning Vector Quantization and Self- Organizing Maps.

r-classint

Homepage:
Spack package:
Versions:
0.4-3, 0.4-1, 0.3-3, 0.3-1, 0.1-24
Build Dependencies:
r, r-e1071, r-class, r-kernsmooth
Run Dependencies:
r, r-e1071, r-class, r-kernsmooth
Description:
Choose Univariate Class Intervals. Selected commonly used methods for choosing univariate class intervals for mapping or other graphics purposes.

r-cli

Homepage:
Spack package:
Versions:
3.2.0, 3.1.1, 3.1.0, 3.0.1, 2.2.0, 2.0.2, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
r, r-glue, r-assertthat, r-crayon, r-fansi
Run Dependencies:
r, r-glue, r-assertthat, r-crayon, r-fansi
Description:
Helpers for Developing Command Line Interfaces. A suite of tools to build attractive command line interfaces ('CLIs'), from semantic elements: headings, lists, alerts, paragraphs, etc. Supports custom themes via a 'CSS'-like language. It also contains a number of lower level 'CLI' elements: rules, boxes, trees, and 'Unicode' symbols with 'ASCII' alternatives. It integrates with the 'crayon' package to support 'ANSI' terminal colors.

r-clipr

Homepage:
Spack package:
Versions:
0.7.1, 0.7.0, 0.5.0, 0.4.0
Build Dependencies:
r, xclip
Link Dependencies:
r, xclip
Run Dependencies:
r
Description:
Read and Write from the System Clipboard. Simple utility functions to read from and write to the Windows, OS X, and X11 clipboards.

r-clisymbols

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Unicode Symbols at the R Prompt. A small subset of Unicode symbols, that are useful when building command line applications. They fall back to alternatives on terminals that do not support Unicode. Many symbols were taken from the 'figures' 'npm' package (see <https://github.com/sindresorhus/figures>).

r-clue

Homepage:
Spack package:
Versions:
0.3-60, 0.3-58, 0.3-57
Build Dependencies:
r, r-cluster
Run Dependencies:
r, r-cluster
Description:
Cluster Ensembles.

r-cluster

Homepage:
Spack package:
Versions:
2.1.2, 2.1.0, 2.0.7-1, 2.0.5, 2.0.4
Build Dependencies:
r
Run Dependencies:
r
Description:
"Finding Groups in Data": Cluster Analysis Extended Rousseeuw et al. Methods for Cluster analysis. Much extended the original from Peter Rousseeuw, Anja Struyf and Mia Hubert, based on Kaufman and Rousseeuw (1990) "Finding Groups in Data".

r-clustergeneration

Homepage:
Spack package:
Versions:
1.3.7, 1.3.4
Build Dependencies:
r, r-mass
Run Dependencies:
r, r-mass
Description:
Random Cluster Generation (with Specified Degree of Separation). We developed the clusterGeneration package to provide functions for generating random clusters, generating random covariance/correlation matrices, calculating a separation index (data and population version) for pairs of clusters or cluster distributions, and 1-D and 2-D projection plots to visualize clusters. The package also contains a function to generate random clusters based on factorial designs with factors such as degree of separation, number of clusters, number of variables, number of noisy variables.

r-clusterprofiler

Homepage:
Spack package:
Versions:
4.2.2, 3.18.0, 3.12.0, 3.10.1, 3.8.1, 3.6.0, 3.4.4
Build Dependencies:
r, r-annotationdbi, r-downloader, r-dose, r-dplyr, r-enrichplot, r-go-db, r-gosemsim, r-magrittr, r-plyr, r-qvalue, r-rlang, r-tidyr, r-yulab-utils, r-ggplot2, r-rvcheck
Run Dependencies:
r, r-annotationdbi, r-downloader, r-dose, r-dplyr, r-enrichplot, r-go-db, r-gosemsim, r-magrittr, r-plyr, r-qvalue, r-rlang, r-tidyr, r-yulab-utils, r-ggplot2, r-rvcheck
Description:
statistical analysis and visualization of functional profiles for genes and gene clusters. This package implements methods to analyze and visualize functional profiles (GO and KEGG) of gene and gene clusters.

r-cner

Homepage:
Spack package:
Versions:
1.30.0, 1.26.0, 1.20.0, 1.18.1, 1.16.1, 1.14.0, 1.12.1
Build Dependencies:
r, r-biostrings, r-dbi, r-rsqlite, r-genomeinfodb, r-genomicranges, r-rtracklayer, r-xvector, r-genomicalignments, r-s4vectors, r-iranges, r-readr, r-biocgenerics, r-reshape2, r-ggplot2, r-powerlaw, r-annotate, r-go-db, r-r-utils, r-keggrest
Run Dependencies:
r, r-biostrings, r-dbi, r-rsqlite, r-genomeinfodb, r-genomicranges, r-rtracklayer, r-xvector, r-genomicalignments, r-s4vectors, r-iranges, r-readr, r-biocgenerics, r-reshape2, r-ggplot2, r-powerlaw, r-annotate, r-go-db, r-r-utils, r-keggrest
Description:
CNE Detection and Visualization. Large-scale identification and advanced visualization of sets of conserved noncoding elements.

r-coda

Homepage:
Spack package:
Versions:
0.19-4, 0.19-3, 0.19-2, 0.19-1
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Output Analysis and Diagnostics for MCMC. Provides functions for summarizing and plotting the output from Markov Chain Monte Carlo (MCMC) simulations, as well as diagnostic tests of convergence to the equilibrium distribution of the Markov chain.

r-codetools

Homepage:
Spack package:
Versions:
0.2-18, 0.2-16, 0.2-15, 0.2-14
Build Dependencies:
r
Run Dependencies:
r
Description:
Code analysis tools for R.

r-codex

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.18.0
Build Dependencies:
r, r-rsamtools, r-genomeinfodb, r-bsgenome-hsapiens-ucsc-hg19, r-iranges, r-biostrings, r-s4vectors
Run Dependencies:
r, r-rsamtools, r-genomeinfodb, r-bsgenome-hsapiens-ucsc-hg19, r-iranges, r-biostrings, r-s4vectors
Description:
A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing. A normalization and copy number variation calling procedure for whole exome DNA sequencing data. CODEX relies on the availability of multiple samples processed using the same sequencing pipeline for normalization, and does not require matched controls. The normalization model in CODEX includes terms that specifically remove biases due to GC content, exon length and targeting and amplification efficiency, and latent systemic artifacts. CODEX also includes a Poisson likelihood-based recursive segmentation procedure that explicitly models the count-based exome sequencing data.

r-coin

Homepage:
Spack package:
Versions:
1.4-2, 1.3-1, 1.3-0, 1.2-2, 1.1-3
Build Dependencies:
r, r-survival, r-libcoin, r-matrixstats, r-modeltools, r-mvtnorm, r-multcomp
Run Dependencies:
r, r-survival, r-libcoin, r-matrixstats, r-modeltools, r-mvtnorm, r-multcomp
Description:
Conditional Inference Procedures in a Permutation Test Framework. Conditional inference procedures for the general independence problem including two-sample, K-sample (non-parametric ANOVA), correlation, censored, ordered and multivariate problems.

r-colorspace

Homepage:
Spack package:
Versions:
2.0-2, 2.0-0, 1.4-1, 1.4-0, 1.3-2, 1.2-6
Build Dependencies:
r
Run Dependencies:
r
Description:
A Toolbox for Manipulating and Assessing Colors and Palettes. Carries out mapping between assorted color spaces including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB, and polar CIELAB. Qualitative, sequential, and diverging color palettes based on HCL colors are provided along with corresponding ggplot2 color scales. Color palette choice is aided by an interactive app (with either a Tcl/Tk or a shiny graphical user interface) and shiny apps with an HCL color picker and a color vision deficiency emulator. Plotting functions for displaying and assessing palettes include color swatches, visualizations of the HCL space, and trajectories in HCL and/or RGB spectrum. Color manipulation functions include: desaturation, lightening/darkening, mixing, and simulation of color vision deficiencies (deutanomaly, protanomaly, tritanomaly). Details can be found on the project web page at <https://colorspace.R-Forge.R-project.org/> and in the accompanying scientific paper: Zeileis et al. (2020, Journal of Statistical Software, <doi:10.18637/jss.v096.i01>).

r-colourpicker

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
r, r-ggplot2, r-htmltools, r-htmlwidgets, r-jsonlite, r-miniui, r-shiny, r-shinyjs
Run Dependencies:
r, r-ggplot2, r-htmltools, r-htmlwidgets, r-jsonlite, r-miniui, r-shiny, r-shinyjs
Description:
A Colour Picker Tool for Shiny and for Selecting Colours in Plots. A colour picker that can be used as an input in 'Shiny' apps or Rmarkdown documents. The colour picker supports alpha opacity, custom colour palettes, and many more options. A Plot Colour Helper tool is available as an 'RStudio' Addin, which helps you pick colours to use in your plots. A more generic Colour Picker 'RStudio' Addin is also provided to let you select colours to use in your R code.

r-combinat

Homepage:
Spack package:
Versions:
0.0-8
Build Dependencies:
r
Run Dependencies:
r
Description:
combinatorics utilities. routines for combinatorics.

r-commonmark

Homepage:
Spack package:
Versions:
1.7
Build Dependencies:
r
Run Dependencies:
r
Description:
High Performance CommonMark and Github Markdown Rendering in R. The CommonMark specification defines a rationalized version of markdown syntax. This package uses the 'cmark' reference implementation for converting markdown text into various formats including html, latex and groff man. In addition it exposes the markdown parse tree in xml format. Also includes opt-in support for GFM extensions including tables, autolinks, and strikethrough text.

r-complexheatmap

Homepage:
Spack package:
Versions:
2.10.0, 2.6.2, 2.0.0, 1.20.0, 1.18.1, 1.17.1, 1.14.0
Build Dependencies:
r, r-circlize, r-getoptlong, r-colorspace, r-clue, r-rcolorbrewer, r-globaloptions, r-png, r-digest, r-iranges, r-matrixstats, r-foreach, r-doparallel, r-dendextend, r-s4vectors, r-cairo
Run Dependencies:
r, r-circlize, r-getoptlong, r-colorspace, r-clue, r-rcolorbrewer, r-globaloptions, r-png, r-digest, r-iranges, r-matrixstats, r-foreach, r-doparallel, r-dendextend, r-s4vectors, r-cairo
Description:
Make Complex Heatmaps. Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics.

r-compositions

Homepage:
Spack package:
Versions:
2.0-4, 2.0-1, 1.40-2
Build Dependencies:
r, r-tensora, r-robustbase, r-bayesm, r-mass, r-energy
Run Dependencies:
r, r-tensora, r-robustbase, r-bayesm, r-mass, r-energy
Description:
Compositional Data Analysis. Provides functions for the consistent analysis of compositional data (e.g. portions of substances) and positive numbers (e.g. concentrations) in the way proposed by J. Aitchison and V. Pawlowsky-Glahn.

r-compquadform

Homepage:
Spack package:
Versions:
1.4.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Distribution Function of Quadratic Forms in Normal Variables. Computes the distribution function of quadratic forms in normal variables using Imhof's method, Davies's algorithm, Farebrother's algorithm or Liu et al.'s algorithm.

r-condop

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
r, r-mclust, r-earth, r-plyr, r-seqinr, r-randomforest, r-rminer, r-genomicranges, r-genomeinfodb, r-s4vectors, r-iranges
Run Dependencies:
r, r-mclust, r-earth, r-plyr, r-seqinr, r-randomforest, r-rminer, r-genomicranges, r-genomeinfodb, r-s4vectors, r-iranges
Description:
Condition-Dependent Operon Predictions. An implementation of the computational strategy for the comprehensive analysis of condition- dependent operon maps in prokaryotes proposed by Fortino et al. (2014) <doi:10.1186/1471-2105-15-145>. It uses RNA-seq transcriptome profiles to improve prokaryotic operon map inference.

r-conquer

Homepage:
Spack package:
Versions:
1.2.1, 1.0.2
Build Dependencies:
r, r-rcpp, r-matrix, r-matrixstats, r-caret, r-rcpparmadillo
Run Dependencies:
r, r-rcpp, r-matrix, r-matrixstats, r-caret, r-rcpparmadillo
Description:
Convolution-Type Smoothed Quantile Regression. Fast and accurate convolution-type smoothed quantile regression. Implemented using Barzilai-Borwein gradient descent with a Huber regression warm start. Construct confidence intervals for regression coefficients using multiplier bootstrap.

r-construct

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3
Build Dependencies:
r, r-rcpp, r-rstan, r-rstantools, r-caroline, r-gtools, r-foreach, r-doparallel, r-stanheaders, r-bh, r-rcppeigen, gmake
Run Dependencies:
r, r-rcpp, r-rstan, r-rstantools, r-caroline, r-gtools, r-foreach, r-doparallel, r-stanheaders, r-bh, r-rcppeigen
Description:
Models Spatially Continuous and Discrete Population GeneticStructure. A method for modeling genetic data as a combination of discrete layers, within each of which relatedness may decay continuously with geographic distance. This package contains code for running analyses (which are implemented in the modeling language 'rstan') and visualizing and interpreting output. See the paper for more details on the model and its utility.

r-convevol

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
r, r-ape, r-cluster, r-geiger, r-mass, r-phytools
Run Dependencies:
r, r-ape, r-cluster, r-geiger, r-mass, r-phytools
Description:
Analysis of Convergent Evolution. Quantifies and assesses the significance of convergent evolution using two different methods (and 5 different measures) as described in Stayton (2015) <doi:10.1111/evo.12729>. Also displays results in a phylomorphospace framework.

r-copula

Homepage:
Spack package:
Versions:
1.0-1, 0.999-20
Build Dependencies:
r, r-matrix, r-lattice, r-colorspace, r-gsl, r-adgoftest, r-stabledist, r-mvtnorm, r-pcapp, r-pspline, r-numderiv
Run Dependencies:
r, r-matrix, r-lattice, r-colorspace, r-gsl, r-adgoftest, r-stabledist, r-mvtnorm, r-pcapp, r-pspline, r-numderiv
Description:
Multivariate Dependence with Copulas. Classes (S4) of commonly used elliptical, Archimedean, extreme-value and other copula families, as well as their rotations, mixtures and asymmetrizations. Nested Archimedean copulas, related tools and special functions. Methods for density, distribution, random number generation, bivariate dependence measures, Rosenblatt transform, Kendall distribution function, perspective and contour plots. Fitting of copula models with potentially partly fixed parameters, including standard errors. Serial independence tests, copula specification tests (independence, exchangeability, radial symmetry, extreme-value dependence, goodness-of-fit) and model selection based on cross-validation. Empirical copula, smoothed versions, and non- parametric estimators of the Pickands dependence function.

r-corhmm

Homepage:
Spack package:
Versions:
2.7, 2.6, 1.22
Build Dependencies:
r, r-ape, r-nloptr, r-gensa, r-expm, r-numderiv, r-corpcor, r-mass, r-nnet, r-phangorn, r-viridis, r-rmpfr, r-igraph, r-phytools
Run Dependencies:
r, r-ape, r-nloptr, r-gensa, r-expm, r-numderiv, r-corpcor, r-mass, r-nnet, r-phangorn, r-viridis, r-rmpfr, r-igraph, r-phytools
Description:
Hidden Markov Models of Character Evolution. Fits hidden Markov models of discrete character evolution which allow different transition rate classes on different portions of a phylogeny. Beaulieu et al (2013) <doi:10.1093/sysbio/syt034>.

r-corpcor

Homepage:
Spack package:
Versions:
1.6.10, 1.6.9
Build Dependencies:
r
Run Dependencies:
r
Description:
Efficient Estimation of Covariance and (Partial) Correlation. Implements a James-Stein-type shrinkage estimator for the covariance matrix, with separate shrinkage for variances and correlations. The details of the method are explained in Schafer and Strimmer (2005) <DOI:10.2202/1544-6115.1175> and Opgen-Rhein and Strimmer (2007) <DOI:10.2202/1544-6115.1252>. The approach is both computationally as well as statistically very efficient, it is applicable to "small n, large p" data, and always returns a positive definite and well- conditioned covariance matrix. In addition to inferring the covariance matrix the package also provides shrinkage estimators for partial correlations and partial variances. The inverse of the covariance and correlation matrix can be efficiently computed, as well as any arbitrary power of the shrinkage correlation matrix. Furthermore, functions are available for fast singular value decomposition, for computing the pseudoinverse, and for checking the rank and positive definiteness of a matrix.

r-corrplot

Homepage:
Spack package:
Versions:
0.92, 0.84, 0.77
Build Dependencies:
r
Run Dependencies:
r
Description:
Visualization of a Correlation Matrix. Provides a visual exploratory tool on correlation matrix that supports automatic variable reordering to help detect hidden patterns among variables.

r-countrycode

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Convert Country Names and Country Codes. Countrycode standardizes country names, converts them into ~40 different coding schemes, and assigns region descriptors.

r-covr

Homepage:
Spack package:
Versions:
3.5.1, 3.5.0, 3.3.0, 3.2.1, 3.2.0, 3.0.1
Build Dependencies:
r, r-digest, r-jsonlite, r-rex, r-httr, r-crayon, r-withr, r-yaml
Run Dependencies:
r, r-digest, r-jsonlite, r-rex, r-httr, r-crayon, r-withr, r-yaml
Description:
Test Coverage for Packages. Track and report code coverage for your package and (optionally) upload the results to a coverage service like 'Codecov' <http://codecov.io> or 'Coveralls' <https://coveralls.io/>. Code coverage is a measure of the amount of code being exercised by a set of tests. It is an indirect measure of test quality and completeness. This package is compatible with any testing methodology or framework and tracks coverage of both R code and compiled C/C++/FORTRAN code.

r-cowplot

Homepage:
Spack package:
Versions:
1.1.1, 1.0.0, 0.9.3, 0.9.2, 0.9.1, 0.9.0, 0.8.0
Build Dependencies:
r, r-ggplot2, r-gtable, r-rlang, r-scales, r-plyr
Run Dependencies:
r, r-ggplot2, r-gtable, r-rlang, r-scales, r-plyr
Description:
Streamlined Plot Theme and Plot Annotations for 'ggplot2'. Provides various features that help with creating publication-quality figures with 'ggplot2', such as a set of themes, functions to align plots and arrange them into complex compound figures, and functions that make it easy to annotate plots and or mix plots with images. The package was originally written for internal use in the Wilke lab, hence the name (Claus O. Wilke's plot package). It has also been used extensively in the book Fundamentals of Data Visualization.

r-cpp11

Homepage:
Spack package:
Versions:
0.4.2, 0.4.0, 0.2.5
Build Dependencies:
r
Run Dependencies:
r
Description:
A C++11 Interface for R's C Interface. Provides a header only, C++11 interface to R's C interface. Compared to other approaches 'cpp11' strives to be safe against long jumps from the C API as well as C++ exceptions, conform to normal R function semantics and supports interaction with 'ALTREP' vectors.

r-crayon

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.3.4, 1.3.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Colored Terminal Output. Colored terminal output on terminals that support 'ANSI' color and highlight codes. It also works in 'Emacs' 'ESS'. 'ANSI' color support is automatically detected. Colors and highlighting can be combined and nested. New styles can also be created easily. This package was inspired by the 'chalk' 'JavaScript' project.

r-credentials

Homepage:
Spack package:
Versions:
1.3.2, 1.3.0
Build Dependencies:
r, r-openssl, r-sys, r-curl, r-jsonlite, r-askpass
Run Dependencies:
r, r-openssl, r-sys, r-curl, r-jsonlite, r-askpass, git
Description:
Tools for Managing SSH and Git Credentials. Setup and retrieve HTTPS and SSH credentials for use with 'git' and other services. For HTTPS remotes the package interfaces the 'git-credential' utility which 'git' uses to store HTTP usernames and passwords. For SSH remotes we provide convenient functions to find or generate appropriate SSH keys. The package both helps the user to setup a local git installation, and also provides a back-end for git/ssh client libraries to authenticate with existing user credentials.

r-crosstalk

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0.1, 1.0.0
Build Dependencies:
r, r-htmltools, r-jsonlite, r-lazyeval, r-r6, r-ggplot2, r-shiny
Run Dependencies:
r, r-htmltools, r-jsonlite, r-lazyeval, r-r6, r-ggplot2, r-shiny
Description:
Inter-Widget Interactivity for HTML Widgets. Provides building blocks for allowing HTML widgets to communicate with each other, with Shiny or without (i.e. static .html files). Currently supports linked brushing and filtering.

r-crul

Homepage:
Spack package:
Versions:
1.2.0, 1.0.0, 0.8.4, 0.7.4
Build Dependencies:
r, r-curl, r-r6, r-urltools, r-httpcode, r-jsonlite, r-mime
Run Dependencies:
r, r-curl, r-r6, r-urltools, r-httpcode, r-jsonlite, r-mime
Description:
HTTP Client. A simple HTTP client, with tools for making HTTP requests, and mocking HTTP requests. The package is built on R6, and takes inspiration from Ruby's 'faraday' gem (<https://rubygems.org/gems/faraday>). The package name is a play on curl, the widely used command line tool for HTTP, and this package is built on top of the R package 'curl', an interface to 'libcurl' (<https://curl.haxx.se/libcurl>).

r-ctc

Homepage:
Spack package:
Versions:
1.68.0, 1.64.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0
Build Dependencies:
r, r-amap
Run Dependencies:
r, r-amap
Description:
Cluster and Tree Conversion. Tools for export and import classification trees and clusters to other programs

r-cubature

Homepage:
Spack package:
Versions:
2.0.4.2, 2.0.4.1, 2.0.3, 2.0.2, 1.1-2
Build Dependencies:
r, r-rcpp, gmake
Run Dependencies:
r, r-rcpp
Description:
Adaptive multivariate integration over hypercubes. R wrappers around the cubature C library of Steven G. Johnson for adaptive multivariate integration over hypercubes and the Cuba C library of Thomas Hahn for deterministic and Monte Carlo integration. Scalar and vector interfaces for cubature and Cuba routines are provided; the vector interfaces are highly recommended as demonstrated in the package vignette.

r-cubist

Homepage:
Spack package:
Versions:
0.3.0, 0.2.3, 0.2.2, 0.2.1, 0.0.19
Build Dependencies:
r, r-lattice, r-reshape2
Run Dependencies:
r, r-lattice, r-reshape2
Description:
Rule- And Instance-Based Regression Modeling. Regression modeling using rules with added instance-based corrections.

r-curl

Homepage:
Spack package:
Versions:
4.3.2, 4.3, 4.0, 3.3, 3.0, 2.3, 1.0, 0.9.7
Build Dependencies:
r, curl
Link Dependencies:
curl
Run Dependencies:
r
Description:
A Modern and Flexible Web Client for R. The curl() and curl_download() functions provide highly configurable drop-in replacements for base url() and download.file() with better performance, support for encryption (https, ftps), gzip compression, authentication, and other libcurl goodies. The core of the package implements a framework for performing fully customized requests where data can be processed either in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of libcurl is recommended; for a more-user- friendly web client see the 'httr' package which builds on this package with http specific tools and logic.

r-dada2

Homepage:
Spack package:
Versions:
1.14
Build Dependencies:
r, r-rcpp, r-biostrings, r-ggplot2, r-reshape2, r-shortread, r-rcppparallel, r-iranges, r-xvector, r-biocgenerics, gmake
Run Dependencies:
r, r-rcpp, r-biostrings, r-ggplot2, r-reshape2, r-shortread, r-rcppparallel, r-iranges, r-xvector, r-biocgenerics
Description:
Accurate sample inference from amplicon data with single nucleotide resolution

r-data-table

Homepage:
Spack package:
Versions:
1.14.2, 1.13.6, 1.12.8, 1.12.2, 1.12.0, 1.11.8, 1.11.6, 1.11.4, 1.11.2, 1.11.0, 1.10.4-3, 1.10.4-2, 1.10.4-1, 1.10.4, 1.10.2, 1.10.0, 1.9.8, 1.9.6
Build Dependencies:
r, zlib
Link Dependencies:
zlib
Run Dependencies:
r
Description:
Extension of `data.frame`. Fast aggregation of large data (e.g. 100GB in RAM), fast ordered joins, fast add/modify/delete of columns by group using no copies at all, list columns and a fast file reader (fread). Offers a natural and flexible syntax, for faster development.

r-dbi

Homepage:
Spack package:
Versions:
1.1.2, 1.1.1, 1.1.0, 1.0.0, 0.7, 0.4-1
Build Dependencies:
r
Run Dependencies:
r
Description:
R Database Interface. A database interface definition for communication between R and relational database management systems. All classes in this package are virtual and need to be extended by the various R/DBMS implementations.

r-dbplyr

Homepage:
Spack package:
Versions:
2.1.1, 2.0.0, 1.4.2, 1.4.1, 1.2.2, 1.2.1, 1.2.0, 1.1.0
Build Dependencies:
r, r-assertthat, r-blob, r-dbi, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-magrittr, r-purrr, r-r6, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-withr
Run Dependencies:
r, r-assertthat, r-blob, r-dbi, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-magrittr, r-purrr, r-r6, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-withr
Description:
A 'dplyr' Back End for Databases. A 'dplyr' back end for databases that allows you to work with remote database tables as if they are in-memory data frames. Basic features works with any database that has a 'DBI' back end; more advanced features require 'SQL' translation to be provided by the package author.

r-debugme

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
r, r-crayon
Run Dependencies:
r, r-crayon
Description:
Debug R Packages. Specify debug messages as special string constants, and control debugging of packages via environment variables.

r-decipher

Homepage:
Spack package:
Versions:
2.22.0, 2.18.1, 2.12.0, 2.10.2, 2.8.1, 2.6.0, 2.4.0
Build Dependencies:
r, r-biostrings, r-rsqlite, r-dbi, r-s4vectors, r-iranges, r-xvector
Run Dependencies:
r, r-biostrings, r-rsqlite, r-dbi, r-s4vectors, r-iranges, r-xvector
Description:
Tools for curating, analyzing, and manipulating biological sequences. A toolset for deciphering and managing biological sequences.

r-delayedarray

Homepage:
Spack package:
Versions:
0.20.0, 0.16.1, 0.10.0, 0.8.0, 0.6.6, 0.4.1, 0.2.7
Build Dependencies:
r, r-matrix, r-biocgenerics, r-matrixgenerics, r-s4vectors, r-iranges, r-matrixstats, r-biocparallel
Run Dependencies:
r, r-matrix, r-biocgenerics, r-matrixgenerics, r-s4vectors, r-iranges, r-matrixstats, r-biocparallel
Description:
A unified framework for working transparently with on-disk and in-memory array-like datasets. Wrapping an array-like object (typically an on-disk object) in a DelayedArray object allows one to perform common array operations on it without loading the object in memory. In order to reduce memory usage and optimize performance, operations on the object are either delayed or executed using a block processing mechanism. Note that this also works on in-memory array-like objects like DataFrame objects (typically with Rle columns), Matrix objects, and ordinary arrays and data frames.

r-delayedmatrixstats

Homepage:
Spack package:
Versions:
1.16.0, 1.12.3, 1.6.1, 1.4.0, 1.2.0, 1.0.3
Build Dependencies:
r, r-matrixgenerics, r-delayedarray, r-matrixstats, r-sparsematrixstats, r-matrix, r-s4vectors, r-iranges, r-hdf5array, r-biocparallel
Run Dependencies:
r, r-matrixgenerics, r-delayedarray, r-matrixstats, r-sparsematrixstats, r-matrix, r-s4vectors, r-iranges, r-hdf5array, r-biocparallel
Description:
Functions that Apply to Rows and Columns of 'DelayedMatrix' Objects. A port of the 'matrixStats' API for use with DelayedMatrix objects from the 'DelayedArray' package. High-performing functions operating on rows and columns of DelayedMatrix objects, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized.

r-deldir

Homepage:
Spack package:
Versions:
1.0-6, 0.2-3, 0.1-23, 0.1-21, 0.1-14
Build Dependencies:
r
Run Dependencies:
r
Description:
Delaunay Triangulation and Dirichlet (Voronoi) Tessellation. Calculates the Delaunay triangulation and the Dirichlet or Voronoi tessellation (with respect to the entire plane) of a planar point set. Plots triangulations and tessellations in various ways. Clips tessellations to sub-windows. Calculates perimeters of tessellations. Summarises information about the tiles of the tessellation.

r-dendextend

Homepage:
Spack package:
Versions:
1.15.2, 1.14.0, 1.12.0, 1.10.0, 1.5.2
Build Dependencies:
r, r-magrittr, r-ggplot2, r-viridis, r-fpc, r-whisker
Run Dependencies:
r, r-magrittr, r-ggplot2, r-viridis, r-fpc, r-whisker
Description:
Extending 'Dendrogram' Functionality in R. Offers a set of functions for extending 'dendrogram' objects in R, letting you visualize and compare trees of 'hierarchical clusterings'. You can (1) Adjust a tree's graphical parameters - the color, size, type, etc of its branches, nodes and labels. (2) Visually and statistically compare different 'dendrograms' to one another.

r-deoptim

Homepage:
Spack package:
Versions:
2.2-6, 2.2-5, 2.2-4, 2.2-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Global Optimization by Differential Evolution. Implements the differential evolution algorithm for global optimization of a real- valued function of a real-valued parameter vector.

r-deoptimr

Homepage:
Spack package:
Versions:
1.0-10, 1.0-8
Build Dependencies:
r
Run Dependencies:
r
Description:
Differential Evolution Optimization in Pure R. Differential Evolution (DE) stochastic algorithms for global optimization of problems with and without constraints. The aim is to curate a collection of its state-of- the-art variants that (1) do not sacrifice simplicity of design, (2) are essentially tuning-free, and (3) can be efficiently implemented directly in the R language. Currently, it only provides an implementation of the 'jDE' algorithm by Brest et al. (2006) <doi:10.1109/TEVC.2006.872133>.

r-deriv

Homepage:
Spack package:
Versions:
4.1.3, 4.1.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Symbolic Differentiation. R-based solution for symbolic differentiation. It admits user-defined function as well as function substitution in arguments of functions to be differentiated. Some symbolic simplification is part of the work.

r-desc

Homepage:
Spack package:
Versions:
1.4.0, 1.2.0
Build Dependencies:
r, r-r6, r-crayon, r-rprojroot, r-assertthat
Run Dependencies:
r, r-r6, r-crayon, r-rprojroot, r-assertthat
Description:
Manipulate DESCRIPTION Files. Tools to read, write, create, and manipulate DESCRIPTION files. It is intended for packages that create or manipulate other packages.

r-deseq

Homepage:
Spack package:
Versions:
1.42.0, 1.36.0, 1.34.1, 1.32.0, 1.30.0, 1.28.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-locfit, r-lattice, r-genefilter, r-geneplotter, r-mass, r-rcolorbrewer
Run Dependencies:
r, r-biocgenerics, r-biobase, r-locfit, r-lattice, r-genefilter, r-geneplotter, r-mass, r-rcolorbrewer
Description:
Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high- throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution

r-deseq2

Homepage:
Spack package:
Versions:
1.34.0, 1.30.0, 1.24.0, 1.22.2, 1.20.0, 1.18.1, 1.16.1
Build Dependencies:
r, r-s4vectors, r-iranges, r-genomicranges, r-summarizedexperiment, r-biocgenerics, r-biobase, r-biocparallel, r-genefilter, r-locfit, r-geneplotter, r-ggplot2, r-rcpp, r-rcpparmadillo, r-hmisc
Run Dependencies:
r, r-s4vectors, r-iranges, r-genomicranges, r-summarizedexperiment, r-biocgenerics, r-biobase, r-biocparallel, r-genefilter, r-locfit, r-geneplotter, r-ggplot2, r-rcpp, r-rcpparmadillo, r-hmisc
Description:
Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high- throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution.

r-desolve

Homepage:
Spack package:
Versions:
1.30, 1.28, 1.24, 1.21, 1.20
Build Dependencies:
r
Run Dependencies:
r
Description:
Solvers for Initial Value Problems of Differential Equations ('ODE', 'DAE', 'DDE'). Functions that solve initial value problems of a system of first-order ordinary differential equations ('ODE'), of partial differential equations ('PDE'), of differential algebraic equations ('DAE'), and of delay differential equations. The functions provide an interface to the FORTRAN functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK' collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk' and a C-implementation of solvers of the 'Runge-Kutta' family with fixed or variable time steps. The package contains routines designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D partial differential equations ('PDE') that have been converted to 'ODEs' by numerical differencing.

r-dexseq

Homepage:
Spack package:
Versions:
1.40.0, 1.36.0
Build Dependencies:
r, r-biocparallel, r-biobase, r-summarizedexperiment, r-iranges, r-genomicranges, r-deseq2, r-annotationdbi, r-rcolorbrewer, r-s4vectors, r-biocgenerics, r-biomart, r-hwriter, r-stringr, r-rsamtools, r-statmod, r-geneplotter, r-genefilter
Run Dependencies:
r, r-biocparallel, r-biobase, r-summarizedexperiment, r-iranges, r-genomicranges, r-deseq2, r-annotationdbi, r-rcolorbrewer, r-s4vectors, r-biocgenerics, r-biomart, r-hwriter, r-stringr, r-rsamtools, r-statmod, r-geneplotter, r-genefilter
Description:
Inference of differential exon usage in RNA-Seq. The package is focused on finding differential exon usage using RNA-seq exon counts between samples with different experimental designs. It provides functions that allows the user to make the necessary statistical tests based on a model that uses the negative binomial distribution to estimate the variance between biological replicates and generalized linear models for testing. The package also provides functions for the visualization and exploration of the results.

r-diagrammer

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6.1, 1.0.1, 1.0.0, 0.8.4
Build Dependencies:
r, r-dplyr, r-downloader, r-glue, r-htmltools, r-htmlwidgets, r-igraph, r-influencer, r-magrittr, r-purrr, r-rcolorbrewer, r-readr, r-rlang, r-rstudioapi, r-scales, r-stringr, r-tibble, r-tidyr, r-viridis, r-visnetwork, r-rgexf
Run Dependencies:
r, r-dplyr, r-downloader, r-glue, r-htmltools, r-htmlwidgets, r-igraph, r-influencer, r-magrittr, r-purrr, r-rcolorbrewer, r-readr, r-rlang, r-rstudioapi, r-scales, r-stringr, r-tibble, r-tidyr, r-viridis, r-visnetwork, r-rgexf
Description:
Graph/Network Visualization. Build graph/network structures using functions for stepwise addition and deletion of nodes and edges. Work with data available in tables for bulk addition of nodes, edges, and associated metadata. Use graph selections and traversals to apply changes to specific nodes or edges. A wide selection of graph algorithms allow for the analysis of graphs. Visualize the graphs and take advantage of any aesthetic properties assigned to nodes and edges.

r-dicekriging

Homepage:
Spack package:
Versions:
1.6.0, 1.5.8, 1.5.6, 1.5.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Kriging Methods for Computer Experiments. Estimation, validation and prediction of kriging models. Important functions: km, print.km, plot.km, predict.km.

r-dichromat

Homepage:
Spack package:
Versions:
2.0-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Color Schemes for Dichromats. Collapse red-green or green-blue distinctions to simulate the effects of different types of color- blindness.

r-diffobj

Homepage:
Spack package:
Versions:
0.3.5, 0.3.3
Build Dependencies:
r, r-crayon
Run Dependencies:
r, r-crayon
Description:
Diffs for R Objects. Generate a colorized diff of two R objects for an intuitive visualization of their differences.

r-diffusionmap

Homepage:
Spack package:
Versions:
1.2.0, 1.1-0.1, 1.1-0, 1.0-0, 0.0-2, 0.0-1
Build Dependencies:
r, r-scatterplot3d, r-igraph, r-matrix
Run Dependencies:
r, r-scatterplot3d, r-igraph, r-matrix
Description:
Diffusion Map. Implements diffusion map method of data parametrization, including creation and visualization of diffusion map, clustering with diffusion K-means and regression using adaptive regression model. Richards (2009) <doi:10.1088/0004-637X/691/1/32>.

r-digest

Homepage:
Spack package:
Versions:
0.6.29, 0.6.28, 0.6.27, 0.6.25, 0.6.20, 0.6.19, 0.6.12, 0.6.11, 0.6.9
Build Dependencies:
r
Run Dependencies:
r
Description:
Create Compact Hash Digests of R Objects. Implementation of a function 'digest()' for the creation of hash digests of arbitrary R objects (using the md5, sha-1, sha-256, crc32, xxhash and murmurhash algorithms) permitting easy comparison of R language objects, as well as a function 'hmac()' to create hash-based message authentication code. The md5 algorithm by Ron Rivest is specified in RFC 1321, the sha-1 and sha-256 algorithms are specified in FIPS-180-1 and FIPS-180-2, and the crc32 algorithm is described in ftp://ftp.rocksoft.com/cliens/rocksoft/papers/crc_v3.txt. For md5, sha-1, sha-256 and aes, this package uses small standalone implementations that were provided by Christophe Devine. For crc32, code from the zlib library is used. For sha-512, an implementation by Aaron D. Gifford is used. For xxhash, the implementation by Yann Collet is used. For murmurhash, an implementation by Shane Day is used. Please note that this package is not meant to be deployed for cryptographic purposes for which more comprehensive (and widely tested) libraries such as OpenSSL should be used.

r-diptest

Homepage:
Spack package:
Versions:
0.76-0, 0.75-7
Build Dependencies:
r
Run Dependencies:
r
Description:
Hartigan's Dip Test Statistic for Unimodality - Corrected. Compute Hartigan's dip test statistic for unimodality /; multimodality and provide a test with simulation based p-values, where; the original public code has been corrected.

r-dirichletmultinomial

Homepage:
Spack package:
Versions:
1.36.0, 1.32.0, 1.26.0, 1.24.1, 1.22.0, 1.20.0, 1.18.0
Build Dependencies:
r, r-s4vectors, r-iranges, r-biocgenerics, gsl
Link Dependencies:
gsl
Run Dependencies:
r, r-s4vectors, r-iranges, r-biocgenerics
Description:
Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data. Dirichlet-multinomial mixture models can be used to describe variability in microbial metagenomic data. This package is an interface to code originally made available by Holmes, Harris, and Quince, 2012, PLoS ONE 7(2): 1-15, as discussed further in the man page for this package, ?DirichletMultinomial.

r-dismo

Homepage:
Spack package:
Versions:
1.3-5, 1.3-3, 1.1-4
Build Dependencies:
r, r-raster, r-sp, java
Link Dependencies:
java
Run Dependencies:
r, r-raster, r-sp
Description:
Species Distribution Modeling. Methods for species distribution modeling, that is, predicting the environmental similarity of any site to that of the locations of known occurrences of a species.

r-distributional

Homepage:
Spack package:
Versions:
0.3.0, 0.2.2
Build Dependencies:
r, r-vctrs, r-rlang, r-generics, r-ellipsis, r-numderiv, r-ggplot2, r-scales, r-farver, r-digest, r-lifecycle
Run Dependencies:
r, r-vctrs, r-rlang, r-generics, r-ellipsis, r-numderiv, r-ggplot2, r-scales, r-farver, r-digest, r-lifecycle
Description:
Functions for Base Types and Core R and 'Tidyverse' Features. Vectorised distribution objects with tools for manipulating, visualising, and using probability distributions. Designed to allow model prediction outputs to return distributions rather than their parameters, allowing users to directly interact with predictive distributions in a data-oriented workflow. In addition to providing generic replacements for p/d/q/r functions, other useful statistics can be computed including means, variances, intervals, and highest density regions.

r-diversitree

Homepage:
Spack package:
Versions:
0.9-16, 0.9-15, 0.9-11, 0.9-10
Build Dependencies:
r, r-ape, r-desolve, r-subplex, r-rcpp, fftw, gsl
Link Dependencies:
fftw, gsl
Run Dependencies:
r, r-ape, r-desolve, r-subplex, r-rcpp
Description:
Comparative 'Phylogenetic' Analyses of Diversification. Mostly focusing on analysing diversification and character evolution. Contains implementations of 'BiSSE' (Binary State 'Speciation' and Extinction) and its unresolved tree extensions, 'MuSSE' (Multiple State 'Speciation' and Extinction), 'QuaSSE', 'GeoSSE', and 'BiSSE-ness' Other included methods include Markov models of discrete and continuous trait evolution and constant rate 'speciation' and extinction.

r-dmrcate

Homepage:
Spack package:
Versions:
2.8.5, 2.4.1
Build Dependencies:
r, r-experimenthub, r-bsseq, r-genomeinfodb, r-limma, r-edger, r-dss, r-minfi, r-missmethyl, r-genomicranges, r-plyr, r-gviz, r-iranges, r-s4vectors, r-summarizedexperiment
Run Dependencies:
r, r-experimenthub, r-bsseq, r-genomeinfodb, r-limma, r-edger, r-dss, r-minfi, r-missmethyl, r-genomicranges, r-plyr, r-gviz, r-iranges, r-s4vectors, r-summarizedexperiment
Description:
Methylation array and sequencing spatial analysis methods. De novo identification and extraction of differentially methylated regions (DMRs) from the human genome using Whole Genome Bisulfite Sequencing (WGBS) and Illumina Infinium Array (450K and EPIC) data. Provides functionality for filtering probes possibly confounded by SNPs and cross-hybridisation. Includes GRanges generation and plotting functions.

r-dnacopy

Homepage:
Spack package:
Versions:
1.68.0, 1.64.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0, 1.50.1
Build Dependencies:
r
Run Dependencies:
r
Description:
DNA copy number data analysis. Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.

r-do-db

Homepage:
Spack package:
Versions:
2.9
Build Dependencies:
r, r-annotationdbi
Run Dependencies:
r, r-annotationdbi
Description:
A set of annotation maps describing the entire Disease Ontology. A set of annotation maps describing the entire Disease Ontology assembled using data from DO.

r-domc

Homepage:
Spack package:
Versions:
1.3.7, 1.3.6, 1.3.4
Build Dependencies:
r, r-foreach, r-iterators
Run Dependencies:
r, r-foreach, r-iterators
Description:
Foreach Parallel Adaptor for 'parallel'. Provides a parallel backend for the %dopar% function using the multicore functionality of the parallel package.

r-doparallel

Homepage:
Spack package:
Versions:
1.0.16, 1.0.15, 1.0.11, 1.0.10
Build Dependencies:
r, r-foreach, r-iterators
Run Dependencies:
r, r-foreach, r-iterators
Description:
Foreach Parallel Adaptor for the 'parallel' Package. Provides a parallel backend for the %dopar% function using the parallel package.

r-dorng

Homepage:
Spack package:
Versions:
1.8.2, 1.7.1, 1.6.6
Build Dependencies:
r, r-foreach, r-rngtools, r-iterators, r-pkgmaker
Run Dependencies:
r, r-foreach, r-rngtools, r-iterators, r-pkgmaker
Description:
Generic Reproducible Parallel Backend for 'foreach' Loops. Provides functions to perform reproducible parallel foreach loops, using independent random streams as generated by L'Ecuyer's combined multiple- recursive generator (L'Ecuyer (1999), <doi:10.1287/opre.47.1.159>). It enables to easily convert standard %dopar% loops into fully reproducible loops, independently of the number of workers, the task scheduling strategy, or the chosen parallel environment and associated foreach backend.

r-dose

Homepage:
Spack package:
Versions:
3.20.1, 3.16.0, 3.10.2, 3.8.2, 3.6.1, 3.4.0, 3.2.0
Build Dependencies:
r, r-annotationdbi, r-biocparallel, r-do-db, r-fgsea, r-ggplot2, r-gosemsim, r-qvalue, r-reshape2, r-s4vectors, r-scales, r-rvcheck, r-igraph
Run Dependencies:
r, r-annotationdbi, r-biocparallel, r-do-db, r-fgsea, r-ggplot2, r-gosemsim, r-qvalue, r-reshape2, r-s4vectors, r-scales, r-rvcheck, r-igraph
Description:
Disease Ontology Semantic and Enrichment analysis. This package implements five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring semantic similarities among DO terms and gene products. Enrichment analyses including hypergeometric model and gene set enrichment analysis are also implemented for discovering disease associations of high-throughput biological data.

r-dosnow

Homepage:
Spack package:
Versions:
1.0.19, 1.0.18
Build Dependencies:
r, r-foreach, r-iterators, r-snow
Run Dependencies:
r, r-foreach, r-iterators, r-snow
Description:
Foreach Parallel Adaptor for the 'snow' Package. Provides a parallel backend for the %dopar% function using the snow package of Tierney, Rossini, Li, and Sevcikova.

r-dotcall64

Homepage:
Spack package:
Versions:
1.0-1, 1.0-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Enhanced Foreign Function Interface Supporting Long Vectors. Provides .C64(), which is an enhanced version of .C() and .Fortran() from the foreign function interface. .C64() supports long vectors, arguments of type 64-bit integer, and provides a mechanism to avoid unnecessary copies of read-only and write-only arguments. This makes it a convenient and fast interface to C/C++ and Fortran code.

r-downloader

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
r, r-digest
Run Dependencies:
r, r-digest
Description:
Download Files over HTTP and HTTPS. Provides a wrapper for the download.file function, making it possible to download files over HTTPS on Windows, Mac OS X, and other Unix-like platforms. The 'RCurl' package provides this functionality (and much more) but can be difficult to install because it must be compiled with external dependencies. This package has no external dependencies, so it is much easier to install.

r-dplyr

Homepage:
Spack package:
Versions:
1.0.7, 1.0.3, 0.8.3, 0.8.2, 0.7.7, 0.7.6, 0.7.5, 0.7.4, 0.7.3, 0.7.2, 0.7.1, 0.7.0, 0.5.0
Build Dependencies:
r, r-ellipsis, r-generics, r-glue, r-lifecycle, r-magrittr, r-r6, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-pillar, r-assertthat, r-bindrcpp, r-pkgconfig, r-rcpp, r-bh, r-plogr
Run Dependencies:
r, r-ellipsis, r-generics, r-glue, r-lifecycle, r-magrittr, r-r6, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-pillar, r-assertthat, r-bindrcpp, r-pkgconfig, r-rcpp, r-bh, r-plogr
Description:
A Grammar of Data Manipulation. A fast, consistent tool for working with data frame like objects, both in memory and out of memory.

r-dqrng

Homepage:
Spack package:
Versions:
0.3.0, 0.2.1
Build Dependencies:
r, r-rcpp, r-bh, r-sitmo
Run Dependencies:
r, r-rcpp, r-bh, r-sitmo
Description:
Fast Pseudo Random Number Generators. Several fast random number generators are provided as C++ header only libraries: The PCG family by O'Neill (2014 <https://www.cs.hmc.edu/tr/hmc-cs-2014-0905.pdf>) as well as Xoroshiro128+ and Xoshiro256+ by Blackman and Vigna (2018 <arXiv:1805.01407>). In addition fast functions for generating random numbers according to a uniform, normal and exponential distribution are included. The latter two use the Ziggurat algorithm originally proposed by Marsaglia and Tsang (2000, <doi:10.18637/jss.v005.i08>). These functions are exported to R and as a C++ interface and are enabled for use with the default 64 bit generator from the PCG family, Xoroshiro128+ and Xoshiro256+ as well as the 64 bit version of the 20 rounds Threefry engine (Salmon et al., 2011 <doi:10.1145/2063384.2063405>) as provided by the package 'sitmo'.

r-dss

Homepage:
Spack package:
Versions:
2.42.0, 2.38.0, 2.36.0, 2.34.0, 2.32.0
Build Dependencies:
r, r-biobase, r-biocparallel, r-bsseq, r-delayedarray
Run Dependencies:
r, r-biobase, r-biocparallel, r-bsseq, r-delayedarray
Description:
Dispersion shrinkage for sequencing data. DSS is an R library performing differntial analysis for count-based sequencing data. It detectes differentially expressed genes (DEGs) from RNA-seq, and differentially methylated loci or regions (DML/DMRs) from bisulfite sequencing (BS- seq). The core of DSS is a new dispersion shrinkage method for estimating the dispersion parameter from Gamma-Poisson or Beta-Binomial distributions.

r-dt

Homepage:
Spack package:
Versions:
0.20, 0.17, 0.13, 0.8, 0.7, 0.6, 0.4, 0.3, 0.2, 0.1
Build Dependencies:
r, r-htmltools, r-htmlwidgets, r-jsonlite, r-magrittr, r-crosstalk, r-jquerylib, r-promises
Run Dependencies:
r, r-htmltools, r-htmlwidgets, r-jsonlite, r-magrittr, r-crosstalk, r-jquerylib, r-promises
Description:
A Wrapper of the JavaScript Library 'DataTables'. Data objects in R can be rendered as HTML tables using the JavaScript library 'DataTables' (typically via R Markdown or Shiny). The 'DataTables' library has been included in this R package. The package name 'DT' is an abbreviation of 'DataTables'.

r-dtplyr

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.1.0
Build Dependencies:
r, r-crayon, r-data-table, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-rlang, r-tibble, r-tidyselect, r-vctrs
Run Dependencies:
r, r-crayon, r-data-table, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-rlang, r-tibble, r-tidyselect, r-vctrs
Description:
Data Table Back-End for 'dplyr'. Provides a data.table backend for 'dplyr'. The goal of 'dtplyr' is to allow you to write 'dplyr' code that is automatically translated to the equivalent, but usually much faster, data.table code.

r-dtw

Homepage:
Spack package:
Versions:
1.22-3, 1.20-1, 1.18-1, 1.17-1, 1.16, 1.15, 1.14-3
Build Dependencies:
r, r-proxy
Run Dependencies:
r, r-proxy
Description:
Dynamic Time Warping Algorithms. A comprehensive implementation of dynamic time warping (DTW) algorithms in R. DTW computes the optimal (least cumulative distance) alignment between points of two time series. Common DTW variants covered include local (slope) and global (window) constraints, subsequence matches, arbitrary distance definitions, normalizations, minimum variance matching, and so on. Provides cumulative distances, alignments, specialized plot styles, etc., as described in Giorgino (2009) <doi:10.18637/jss.v031.i07>.

r-dygraphs

Homepage:
Spack package:
Versions:
1.1.1.6, 1.1.1.5, 0.9
Build Dependencies:
r, r-magrittr, r-htmlwidgets, r-zoo, r-xts, r-htmltools
Run Dependencies:
r, r-magrittr, r-htmlwidgets, r-zoo, r-xts, r-htmltools
Description:
Interface to 'Dygraphs' Interactive Time Series Charting Library. An R interface to the 'dygraphs' JavaScript charting library (a copy of which is included in the package). Provides rich facilities for charting time- series data in R, including highly configurable series- and axis-display and interactive features like zoom/pan and series/point highlighting.

r-dynamictreecut

Homepage:
Spack package:
Versions:
1.63-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Methods for Detection of Clusters in Hierarchical Clustering Dendrograms Contains methods for detection of clusters in hierarchical clustering dendrograms.

r-e1071

Homepage:
Spack package:
Versions:
1.7-9, 1.7-4, 1.7-2, 1.7-1, 1.6-7
Build Dependencies:
r, r-class, r-proxy
Run Dependencies:
r, r-class, r-proxy
Description:
Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien. Functions for latent class analysis, short time Fourier transform, fuzzy clustering, support vector machines, shortest path computation, bagged clustering, naive Bayes classifier, generalized k-nearest neighbour ...

r-earth

Homepage:
Spack package:
Versions:
5.3.1, 5.3.0, 5.1.2
Build Dependencies:
r, r-formula, r-plotmo, r-teachingdemos
Run Dependencies:
r, r-formula, r-plotmo, r-teachingdemos
Description:
Multivariate Adaptive Regression Splines. Build regression models using the techniques in Friedman's papers "Fast MARS" and "Multivariate Adaptive Regression Splines" <doi:10.1214/aos/1176347963>.

r-ecp

Homepage:
Spack package:
Versions:
3.1.3, 3.1.1
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Non-Parametric Multiple Change-Point Analysis of MultivariateData. Implements various procedures for finding multiple change-points from Matteson D. et al (2013) <doi:10.1080/01621459.2013.849605>, Zhang W. et al (2017) <doi:10.1109/ICDMW.2017.44>, Arlot S. et al (2019). Two methods make use of dynamic programming and pruning, with no distributional assumptions other than the existence of certain absolute moments in one method. Hierarchical and exact search methods are included. All methods return the set of estimated change-points as well as other summary information.

r-edger

Homepage:
Spack package:
Versions:
3.36.0, 3.32.1, 3.26.8, 3.24.3, 3.22.5, 3.20.9, 3.18.1
Build Dependencies:
r, r-limma, r-locfit, r-rcpp
Run Dependencies:
r, r-limma, r-locfit, r-rcpp
Description:
Empirical Analysis of Digital Gene Expression Data in R. Differential expression analysis of RNA-seq expression profiles with biological replication. Implements a range of statistical methodology based on the negative binomial distributions, including empirical Bayes estimation, exact tests, generalized linear models and quasi-likelihood tests. As well as RNA-seq, it be applied to differential signal analysis of other types of genomic data that produce counts, including ChIP-seq, Bisulfite-seq, SAGE and CAGE.

r-effects

Homepage:
Spack package:
Versions:
4.2-1, 4.2-0
Build Dependencies:
r, r-cardata, r-lme4, r-nnet, r-lattice, r-colorspace, r-survey, r-estimability, r-insight
Run Dependencies:
r, r-cardata, r-lme4, r-nnet, r-lattice, r-colorspace, r-survey, r-estimability, r-insight
Description:
Effect Displays for Linear, Generalized Linear, and Other Models. Graphical and tabular effect displays, e.g., of interactions, for various statistical models with linear predictors.

r-elemstatlearn

Homepage:
Spack package:
Versions:
2015.6.26.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Data Sets, Functions and Examples from the Book: "The Elements of Statistical Learning, Data Mining, Inference, and Prediction" by Trevor Hastie, Robert Tibshirani and Jerome Friedman

r-ellipse

Homepage:
Spack package:
Versions:
0.4.2, 0.4.1, 0.3-8
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Drawing Ellipses and Ellipse-Like Confidence Regions. Contains various routines for drawing ellipses and ellipse-like confidence regions, implementing the plots described in Murdoch and Chow (1996), A graphical display of large correlation matrices, The American Statistician 50, 178-180. There are also routines implementing the profile plots described in Bates and Watts (1988), Nonlinear Regression Analysis and its Applications.

r-ellipsis

Homepage:
Spack package:
Versions:
0.3.2, 0.3.1, 0.3.0, 0.2.0.1
Build Dependencies:
r, r-rlang
Run Dependencies:
r, r-rlang
Description:
Tools for Working with ... The ellipsis is a powerful tool for extending functions. Unfortunately this power comes at a cost: misspelled arguments will be silently ignored. The ellipsis package provides a collection of functions to catch problems and alert the user.

r-emmeans

Homepage:
Spack package:
Versions:
1.7.2, 1.7.1-1, 1.7.0, 1.6.0
Build Dependencies:
r, r-estimability, r-numderiv, r-mvtnorm, r-xtable, r-plyr
Run Dependencies:
r, r-estimability, r-numderiv, r-mvtnorm, r-xtable, r-plyr
Description:
Estimated Marginal Means, aka Least-Squares Means. Obtain estimated marginal means (EMMs) for many linear, generalized linear, and mixed models. Compute contrasts or linear functions of EMMs, trends, and comparisons of slopes. Plots and other displays. Least-squares means are discussed, and the term "estimated marginal means" is suggested, in Searle, Speed, and Milliken (1980) Population marginal means in the linear model: An alternative to least squares means, The American Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.

r-emmli

Homepage:
Spack package:
Versions:
0.0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
A Maximum Likelihood Approach to the Analysis of Modularity. Fit models of modularity to morphological landmarks. Perform model selection on results. Fit models with a single within-module correlation or with separate within-module correlations fitted to each module.

r-energy

Homepage:
Spack package:
Versions:
1.7-9, 1.7-8, 1.7-7, 1.7-6, 1.7-5
Build Dependencies:
r, r-rcpp, r-boot, r-gsl
Run Dependencies:
r, r-rcpp, r-boot, r-gsl
Description:
E-Statistics: Multivariate Inference via the Energy of Data. E-statistics (energy) tests and statistics for multivariate and univariate inference, including distance correlation, one-sample, two- sample, and multi-sample tests for comparing multivariate distributions, are implemented. Measuring and testing multivariate independence based on distance correlation, partial distance correlation, multivariate goodness-of-fit tests, k-groups and hierarchical clustering based on energy distance, testing for multivariate normality, distance components (disco) for non-parametric analysis of structured data, and other energy statistics/methods are implemented.

r-enrichplot

Homepage:
Spack package:
Versions:
1.14.1, 1.10.2, 1.4.0, 1.2.0, 1.0.2
Build Dependencies:
r, r-aplot, r-dose, r-ggplot2, r-ggraph, r-igraph, r-plyr, r-purrr, r-rcolorbrewer, r-reshape2, r-scatterpie, r-shadowtext, r-gosemsim, r-magrittr, r-ggtree, r-yulab-utils, r-ggridges, r-upsetr, r-annotationdbi, r-europepmc, r-ggplotify, r-gridextra, r-cowplot
Run Dependencies:
r, r-aplot, r-dose, r-ggplot2, r-ggraph, r-igraph, r-plyr, r-purrr, r-rcolorbrewer, r-reshape2, r-scatterpie, r-shadowtext, r-gosemsim, r-magrittr, r-ggtree, r-yulab-utils, r-ggridges, r-upsetr, r-annotationdbi, r-europepmc, r-ggplotify, r-gridextra, r-cowplot
Description:
Visualization of Functional Enrichment Result. The 'enrichplot' package implements several visualization methods for interpreting functional enrichment results obtained from ORA or GSEA analysis. All the visualization methods are developed based on 'ggplot2' graphics.

r-ensembldb

Homepage:
Spack package:
Versions:
2.18.3, 2.14.0, 2.8.1, 2.6.8, 2.4.1, 2.2.2, 2.0.4
Build Dependencies:
r, r-biocgenerics, r-genomicranges, r-genomicfeatures, r-annotationfilter, r-rsqlite, r-dbi, r-biobase, r-genomeinfodb, r-annotationdbi, r-rtracklayer, r-s4vectors, r-rsamtools, r-iranges, r-protgenerics, r-biostrings, r-curl, r-annotationhub
Run Dependencies:
r, r-biocgenerics, r-genomicranges, r-genomicfeatures, r-annotationfilter, r-rsqlite, r-dbi, r-biobase, r-genomeinfodb, r-annotationdbi, r-rtracklayer, r-s4vectors, r-rsamtools, r-iranges, r-protgenerics, r-biostrings, r-curl, r-annotationhub
Description:
Utilities to create and use Ensembl-based annotation databases. The package provides functions to create and use transcript centric annotation databases/packages. The annotation for the databases are directly fetched from Ensembl using their Perl API. The functionality and data is similar to that of the TxDb packages from the GenomicFeatures package, but, in addition to retrieve all gene/transcript models and annotations from the database, ensembldb provides a filter framework allowing to retrieve annotations for specific entries like genes encoded on a chromosome region or transcript models of lincRNA genes. EnsDb databases built with ensembldb contain also protein annotations and mappings between proteins and their encoding transcripts. Finally, ensembldb provides functions to map between genomic, transcript and protein coordinates.

r-envstats

Homepage:
Spack package:
Versions:
2.5.0, 2.4.0, 2.3.1, 2.3.0, 2.2.1
Build Dependencies:
r, r-mass, r-ggplot2, r-nortest
Run Dependencies:
r, r-mass, r-ggplot2, r-nortest
Description:
Package for Environmental Statistics, Including US EPA Guidance. Graphical and statistical analyses of environmental data, with focus on analyzing chemical concentrations and physical parameters, usually in the context of mandated environmental monitoring. Major environmental statistical methods found in the literature and regulatory guidance documents, with extensive help that explains what these methods do, how to use them, and where to find them in the literature. Numerous built-in data sets from regulatory guidance documents and environmental statistics literature. Includes scripts reproducing analyses presented in the book "EnvStats: An R Package for Environmental Statistics" (Millard, 2013, Springer, ISBN 978-1-4614-8455-4, <https://www.springer.com/book/9781461484554>).

r-ergm

Homepage:
Spack package:
Versions:
4.1.2, 3.11.0, 3.10.4, 3.10.1, 3.7.1
Build Dependencies:
r, r-network, r-robustbase, r-coda, r-trust, r-matrix, r-lpsolveapi, r-mass, r-statnet-common, r-rle, r-purrr, r-rlang, r-memoise, r-tibble, r-dplyr, r-lpsolve
Run Dependencies:
r, r-network, r-robustbase, r-coda, r-trust, r-matrix, r-lpsolveapi, r-mass, r-statnet-common, r-rle, r-purrr, r-rlang, r-memoise, r-tibble, r-dplyr, r-lpsolve
Description:
Fit, Simulate and Diagnose Exponential-Family Models for Networks. An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGMs). 'ergm' is a part of the Statnet suite of packages for network analysis. See Hunter, Handcock, Butts, Goodreau, and Morris (2008) <doi:10.18637/jss.v024.i03> and Krivitsky, Hunter, Morris, and Klumb (2021) <arXiv:2106.04997>.

r-estimability

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for Assessing Estimability of Linear Predictions. Provides tools for determining estimability of linear functions of regression coefficients, and 'epredict' methods that handle non-estimable cases correctly. Estimability theory is discussed in many linear-models textbooks including Chapter 3 of Monahan, JF (2008), "A Primer on Linear Models", Chapman and Hall (ISBN 978-1-4200-6201-4).

r-europepmc

Homepage:
Spack package:
Versions:
0.4.1, 0.4, 0.3
Build Dependencies:
r, r-httr, r-jsonlite, r-plyr, r-dplyr, r-progress, r-urltools, r-purrr, r-xml2, r-tibble, r-tidyr, r-rlang
Run Dependencies:
r, r-httr, r-jsonlite, r-plyr, r-dplyr, r-progress, r-urltools, r-purrr, r-xml2, r-tibble, r-tidyr, r-rlang
Description:
R Interface to the Europe PubMed Central RESTful Web Service. An R Client for the Europe PubMed Central RESTful Web Service (see <https://europepmc.org/RestfulWebService> for more information). It gives access to both metadata on life science literature and open access full texts. Europe PMC indexes all PubMed content and other literature sources including Agricola, a bibliographic database of citations to the agricultural literature, or Biological Patents. In addition to bibliographic metadata, the client allows users to fetch citations and reference lists. Links between life-science literature and other EBI databases, including ENA, PDB or ChEMBL are also accessible. No registration or API key is required. See the vignettes for usage examples.

r-evaluate

Homepage:
Spack package:
Versions:
0.14, 0.10.1, 0.10, 0.9
Build Dependencies:
r, r-stringr
Run Dependencies:
r, r-stringr
Description:
Parsing and Evaluation Tools that Provide More Details than the Default. Parsing and evaluation tools that make it easy to recreate the command line behaviour of R.

r-evd

Homepage:
Spack package:
Versions:
2.3-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Extreme Value Distributions. Extends simulation, distribution, quantile and density functions to univariate and multivariate parametric extreme value distributions, and provides fitting functions which calculate maximum likelihood estimates for univariate and bivariate maxima models, and for univariate and bivariate threshold models.

r-exactextractr

Homepage:
Spack package:
Versions:
0.7.2, 0.5.1, 0.3.0, 0.2.1
Build Dependencies:
r, r-rcpp, r-raster, r-sf, geos
Link Dependencies:
geos
Run Dependencies:
r, r-rcpp, r-raster, r-sf
Description:
Fast Extraction from Raster Datasets using Polygons. Provides a replacement for the 'extract' function from the 'raster' package that is suitable for extracting raster values using 'sf' polygons.

r-exomecopy

Homepage:
Spack package:
Versions:
1.40.0, 1.36.0, 1.32.0
Build Dependencies:
r, r-iranges, r-genomicranges, r-rsamtools, r-genomeinfodb
Run Dependencies:
r, r-iranges, r-genomicranges, r-rsamtools, r-genomeinfodb
Description:
Copy number variant detection from exome sequencing read depth. Detection of copy number variants (CNV) from exome sequencing samples, including unpaired samples. The package implements a hidden Markov model which uses positional covariates, such as background read depth and GC- content, to simultaneously normalize and segment the samples into regions of constant copy count.

r-exomedepth

Homepage:
Spack package:
Versions:
1.1.15
Build Dependencies:
r, r-biostrings, r-iranges, r-rsamtools, r-genomicranges, r-aod, r-vgam, r-genomicalignments, r-dplyr, r-magrittr
Run Dependencies:
r, r-biostrings, r-iranges, r-rsamtools, r-genomicranges, r-aod, r-vgam, r-genomicalignments, r-dplyr, r-magrittr
Description:
Calls Copy Number Variants from Targeted Sequence Data. Calls copy number variants (CNVs) from targeted sequence data, typically exome sequencing experiments designed to identify the genetic basis of Mendelian disorders.

r-experimenthub

Homepage:
Spack package:
Versions:
2.2.1, 1.16.1
Build Dependencies:
r, r-biocgenerics, r-annotationhub, r-biocfilecache, r-s4vectors, r-biocmanager, r-curl, r-rappdirs
Run Dependencies:
r, r-biocgenerics, r-annotationhub, r-biocfilecache, r-s4vectors, r-biocmanager, r-curl, r-rappdirs
Description:
Client to access ExperimentHub resources. This package provides a client for the Bioconductor ExperimentHub web resource. ExperimentHub provides a central location where curated data from experiments, publications or training courses can be accessed. Each resource has associated metadata, tags and date of modification. The client creates and manages a local cache of files retrieved enabling quick and reproducible access.

r-expint

Homepage:
Spack package:
Versions:
0.1-6, 0.1-5
Build Dependencies:
r
Run Dependencies:
r
Description:
Exponential Integral and Incomplete Gamma Function. The exponential integrals E_1(x), E_2(x), E_n(x) and Ei(x), and the incomplete gamma function G(a, x) defined for negative values of its first argument. The package also gives easy access to the underlying C routines through an API; see the package vignette for details. A test package included in sub-directory example_API provides an implementation. C routines derived from the GNU Scientific Library <https://www.gnu.org/software/gsl/>.

r-expm

Homepage:
Spack package:
Versions:
0.999-6, 0.999-4, 0.999-3, 0.999-2
Build Dependencies:
r, r-matrix
Run Dependencies:
r, r-matrix
Description:
Matrix Exponential, Log, 'etc'. Computation of the matrix exponential, logarithm, sqrt, and related quantities.

r-factoextra

Homepage:
Spack package:
Versions:
1.0.7, 1.0.5, 1.0.4
Build Dependencies:
r, r-ggplot2, r-abind, r-cluster, r-dendextend, r-factominer, r-ggpubr, r-reshape2, r-ggrepel, r-tidyr
Run Dependencies:
r, r-ggplot2, r-abind, r-cluster, r-dendextend, r-factominer, r-ggpubr, r-reshape2, r-ggrepel, r-tidyr
Description:
Extract and Visualize the Results of Multivariate Data Analyses. Provides some easy-to-use functions to extract and visualize the output of multivariate data analyses, including 'PCA' (Principal Component Analysis), 'CA' (Correspondence Analysis), 'MCA' (Multiple Correspondence Analysis), 'FAMD' (Factor Analysis of Mixed Data), 'MFA' (Multiple Factor Analysis) and 'HMFA' (Hierarchical Multiple Factor Analysis) functions from different R packages. It contains also functions for simplifying some clustering analysis steps and provides 'ggplot2' - based elegant data visualization.

r-factominer

Homepage:
Spack package:
Versions:
2.4, 1.42, 1.41, 1.40, 1.39, 1.38, 1.36, 1.35
Build Dependencies:
r, r-car, r-cluster, r-dt, r-ellipse, r-flashclust, r-lattice, r-leaps, r-mass, r-scatterplot3d, r-ggplot2, r-ggrepel
Run Dependencies:
r, r-car, r-cluster, r-dt, r-ellipse, r-flashclust, r-lattice, r-leaps, r-mass, r-scatterplot3d, r-ggplot2, r-ggrepel
Description:
Multivariate Exploratory Data Analysis and Data Mining. Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis. F. Husson, S. Le and J. Pages (2017).

r-fansi

Homepage:
Spack package:
Versions:
1.0.2, 0.5.0, 0.4.1, 0.4.0, 0.3.0, 0.2.3, 0.2.2, 0.2.1
Build Dependencies:
r
Run Dependencies:
r
Description:
ANSI Control Sequence Aware String Functions. Counterparts to R string manipulation functions that account for the effects of ANSI text formatting control sequences.

r-farver

Homepage:
Spack package:
Versions:
2.1.0, 2.0.3, 2.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
High Performance Colour Space Manipulation. The encoding of colour can be handled in many different ways, using different colour spaces. As different colour spaces have different uses, efficient conversion between these representations are important. The 'farver' package provides a set of functions that gives access to very fast colour space conversion and comparisons implemented in C++, and offers speed improvements over the 'convertColor' function in the 'grDevices' package.

r-fastcluster

Homepage:
Spack package:
Versions:
1.2.3, 1.1.25
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast Hierarchical Clustering Routines for R and 'Python'. This is a two- in-one package which provides interfaces to both R and 'Python'. It implements fast hierarchical, agglomerative clustering routines. Part of the functionality is designed as drop-in replacement for existing routines: linkage() in the 'SciPy' package 'scipy.cluster.hierarchy', hclust() in R's 'stats' package, and the 'flashClust' package. It provides the same functionality with the benefit of a much faster implementation. Moreover, there are memory-saving routines for clustering of vector data, which go beyond what the existing packages provide. For information on how to install the 'Python' files, see the file INSTALL in the source distribution.

r-fastdigest

Homepage:
Spack package:
Versions:
0.6-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast, Low Memory-Footprint Digests of R Objects. Provides an R interface to Bob Jenkin's streaming, non-cryptographic 'SpookyHash' hash algorithm for use in digest-based comparisons of R objects. 'fastdigest' plugs directly into R's internal serialization machinery, allowing digests of all R objects the serialize() function supports, including reference- style objects via custom hooks. Speed is high and scales linearly by object size; memory usage is constant and negligible.

r-fastica

Homepage:
Spack package:
Versions:
1.2-3, 1.2-2
Build Dependencies:
r
Run Dependencies:
r
Description:
FastICA Algorithms to Perform ICA and Projection Pursuit. Implementation of FastICA algorithm to perform Independent Component Analysis (ICA) and Projection Pursuit.

r-fastmap

Homepage:
Spack package:
Versions:
1.1.0, 1.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast Implementation of a Key-Value Store. Fast implementation of a key- value store. Environments are commonly used as key-value stores, but every time a new key is used, it is added to R's global symbol table, causing a small amount of memory leakage. This can be problematic in cases where many different keys are used. Fastmap avoids this memory leak issue by implementing the map using data structures in C++.

r-fastmatch

Homepage:
Spack package:
Versions:
1.1-3, 1.1-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast 'match()' Function. Package providing a fast match() replacement for cases that require repeated look-ups. It is slightly faster that R's built-in match() function on first match against a table, but extremely fast on any subsequent lookup as it keeps the hash table in memory.

r-fastmatrix

Homepage:
Spack package:
Versions:
0.3-8196, 0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast Computation of some Matrices Useful in Statistics. Small set of functions to fast computation of some matrices and operations useful in statistics and econometrics. Currently, there are functions for efficient computation of duplication, commutation and symmetrizer matrices with minimal storage requirements. Some commonly used matrix decompositions (LU and LDL), basic matrix operations (for instance, Hadamard, Kronecker products and the Sherman-Morrison formula) and iterative solvers for linear systems are also available. In addition, the package includes a number of common statistical procedures such as the sweep operator, weighted mean and covariance matrix using an online algorithm, linear regression (using Cholesky, QR, SVD, sweep operator and conjugate gradients methods), ridge regression (with optimal selection of the ridge parameter considering the GCV procedure), functions to compute the multivariate skewness, kurtosis, Mahalanobis distance (checking the positive defineteness) and the Wilson-Hilferty transformation of chi squared variables. Furthermore, the package provides interfaces to C code callable by another C code from other R packages.

r-fda

Homepage:
Spack package:
Versions:
5.5.1
Build Dependencies:
r, r-matrix, r-fds, r-desolve
Run Dependencies:
r, r-matrix, r-fds, r-desolve
Description:
Functional Data Analysis. These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. New York: Springer and in Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009).

r-fdb-infiniummethylation-hg18

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
r, r-genomicfeatures, r-txdb-hsapiens-ucsc-hg18-knowngene, r-org-hs-eg-db, r-annotationdbi, r-biostrings
Run Dependencies:
r, r-genomicfeatures, r-txdb-hsapiens-ucsc-hg18-knowngene, r-org-hs-eg-db, r-annotationdbi, r-biostrings
Description:
Annotation package for Illumina Infinium DNA methylation probes. Compiled HumanMethylation27 and HumanMethylation450 annotations

r-fdb-infiniummethylation-hg19

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
r, r-genomicfeatures, r-txdb-hsapiens-ucsc-hg19-knowngene, r-org-hs-eg-db, r-annotationdbi, r-biostrings
Run Dependencies:
r, r-genomicfeatures, r-txdb-hsapiens-ucsc-hg19-knowngene, r-org-hs-eg-db, r-annotationdbi, r-biostrings
Description:
Annotation package for Illumina Infinium DNA methylation probes. Compiled HumanMethylation27 and HumanMethylation450 annotations.

r-fds

Homepage:
Spack package:
Versions:
1.8
Build Dependencies:
r, r-rcurl, r-rainbow
Run Dependencies:
r, r-rcurl, r-rainbow
Description:
Functional data sets.

r-ff

Homepage:
Spack package:
Versions:
4.0.5, 4.0.4, 2.2-14, 2.2-13
Build Dependencies:
r, r-bit
Run Dependencies:
r, r-bit
Description:
Memory-Efficient Storage of Large Data on Disk and Fast Access Functions. The ff package provides data structures that are stored on disk but behave (almost) as if they were in RAM by transparently mapping only a section (pagesize) in main memory - the effective virtual memory consumption per ff object. ff supports R's standard atomic data types 'double', 'logical', 'raw' and 'integer' and non-standard atomic types boolean (1 bit), quad (2 bit unsigned), nibble (4 bit unsigned), byte (1 byte signed with NAs), ubyte (1 byte unsigned), short (2 byte signed with NAs), ushort (2 byte unsigned), single (4 byte float with NAs). For example 'quad' allows efficient storage of genomic data as an 'A','T','G','C' factor. The unsigned types support 'circular' arithmetic. There is also support for close-to-atomic types 'factor', 'ordered', 'POSIXct', 'Date' and custom close-to-atomic types. ff not only has native C-support for vectors, matrices and arrays with flexible dimorder (major column-order, major row-order and generalizations for arrays). There is also a ffdf class not unlike data.frames and import/export filters for csv files. ff objects store raw data in binary flat files in native encoding, and complement this with metadata stored in R as physical and virtual attributes. ff objects have well-defined hybrid copying semantics, which gives rise to certain performance improvements through virtualization. ff objects can be stored and reopened across R sessions. ff files can be shared by multiple ff R objects (using different data en/de-coding schemes) in the same process or from multiple R processes to exploit parallelism. A wide choice of finalizer options allows to work with 'permanent' files as well as creating/removing 'temporary' ff files completely transparent to the user. On certain OS/Filesystem combinations, creating the ff files works without notable delay thanks to using sparse file allocation. Several access optimization techniques such as Hybrid Index Preprocessing and Virtualization are implemented to achieve good performance even with large datasets, for example virtual matrix transpose without touching a single byte on disk. Further, to reduce disk I/O, 'logicals' and non- standard data types get stored native and compact on binary flat files i.e. logicals take up exactly 2 bits to represent TRUE, FALSE and NA. Beyond basic access functions, the ff package also provides compatibility functions that facilitate writing code for ff and ram objects and support for batch processing on ff objects (e.g. as.ram, as.ff, ffapply). ff interfaces closely with functionality from package 'bit': chunked looping, fast bit operations and coercions between different objects that can store subscript information ('bit', 'bitwhich', ff 'boolean', ri range index, hi hybrid index). This allows to work interactively with selections of large datasets and quickly modify selection criteria. Further high-performance enhancements can be made available upon request.x

r-fftwtools

Homepage:
Spack package:
Versions:
0.9-11, 0.9-9, 0.9-8
Build Dependencies:
r, fftw
Link Dependencies:
fftw
Run Dependencies:
r
Description:
Wrapper for 'FFTW3' Includes: One-Dimensional Univariate, One- Dimensional Multivariate, and Two-Dimensional Transform. Provides a wrapper for several 'FFTW' functions. This package provides access to the two-dimensional 'FFT', the multivariate 'FFT', and the one- dimensional real to complex 'FFT' using the 'FFTW3' library. The package includes the functions fftw() and mvfftw() which are designed to mimic the functionality of the R functions fft() and mvfft(). The 'FFT' functions have a parameter that allows them to not return the redundant complex conjugate when the input is real data.

r-fgsea

Homepage:
Spack package:
Versions:
1.20.0, 1.16.0, 1.10.1, 1.8.0, 1.6.0, 1.4.1, 1.2.1
Build Dependencies:
r, r-rcpp, r-data-table, r-biocparallel, r-ggplot2, r-gridextra, r-fastmatch, r-matrix, r-bh
Run Dependencies:
r, r-rcpp, r-data-table, r-biocparallel, r-ggplot2, r-gridextra, r-fastmatch, r-matrix, r-bh
Description:
Fast Gene Set Enrichment Analysis. The package implements an algorithm for fast gene set enrichment analysis. Using the fast algorithm allows to make more permutations and get more fine grained p-values, which allows to use accurate stantard approaches to multiple hypothesis correction.

r-fields

Homepage:
Spack package:
Versions:
13.3, 11.6, 9.9
Build Dependencies:
r, r-spam, r-viridis, r-maps
Run Dependencies:
r, r-spam, r-viridis, r-maps
Description:
Tools for Spatial Data. For curve, surface and function fitting with an emphasis; on splines, spatial data, geostatistics, and spatial statistics. The major methods; include cubic, and thin plate splines, Kriging, and compactly supported; covariance functions for large data sets. The splines and Kriging methods are; supported by functions that can determine the smoothing parameter; (nugget and sill variance) and other covariance function parameters by cross; validation and also by restricted maximum likelihood. For Kriging; there is an easy to use function that also estimates the correlation; scale (range parameter). A major feature is that any covariance function; implemented in R and following a simple format can be used for; spatial prediction. There are also many useful functions for plotting; and working with spatial data as images. This package also contains; an implementation of sparse matrix methods for large spatial data; sets and currently requires the sparse matrix (spam) package. Use; help(fields) to get started and for an overview. The fields source; code is deliberately commented and provides useful explanations of; numerical details as a companion to the manual pages. The commented; source code can be viewed by expanding the source code version; and looking in the R subdirectory. The reference for fields can be generated; by the citation function in R and has DOI <doi:10.5065/D6W957CT>. Development; of this package was supported in part by the National Science Foundation Grant; 1417857, the National Center for Atmospheric Research, and Colorado School of Mines.; See the Fields URL; for a vignette on using this package and some background on spatial statistics.

r-filehash

Homepage:
Spack package:
Versions:
2.4-2, 2.4-1, 2.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Simple Key-Value Database. Implements a simple key-value style database where character string keys are associated with data values that are stored on the disk. A simple interface is provided for inserting, retrieving, and deleting data from the database. Utilities are provided that allow 'filehash' databases to be treated much like environments and lists are already used in R. These utilities are provided to encourage interactive and exploratory analysis on large datasets. Three different file formats for representing the database are currently available and new formats can easily be incorporated by third parties for use in the 'filehash' framework.

r-filelock

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
r, r-callr, r-covr, r-testthat
Run Dependencies:
r, r-callr, r-covr, r-testthat
Description:
Portable File Locking. Place an exclusive or shared lock on a file. It uses 'LockFile' on Windows and 'fcntl' locks on Unix-like systems.

r-findpython

Homepage:
Spack package:
Versions:
1.0.7, 1.0.5, 1.0.4, 1.0.3
Build Dependencies:
r
Run Dependencies:
r, python
Description:
Package designed to find an acceptable python binary.

r-fit-models

Homepage:
Spack package:
Versions:
0.64, 0.5-14, 0.5-13
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Compare Fitted Models. The fit.models function and its associated methods (coefficients, print, summary, plot, etc.) were originally provided in the robust package to compare robustly and classically fitted model objects. See chapters 2, 3, and 5 in Insightful (2002) 'Robust Library User's Guide' <https://robust.r-forge.r-project.org/Robust.pdf>). The aim of the fit.models package is to separate this fitted model object comparison functionality from the robust package and to extend it to support fitting methods (e.g., classical, robust, Bayesian, regularized, etc.) more generally.

r-fitdistrplus

Homepage:
Spack package:
Versions:
1.1-6, 1.1-3, 1.0-14
Build Dependencies:
r, r-mass, r-survival, r-npsurv
Run Dependencies:
r, r-mass, r-survival, r-npsurv
Description:
Help to Fit of a Parametric Distribution to Non-Censored or Censored Data. Extends the fitdistr() function (of the MASS package) with several functions to help the fit of a parametric distribution to non-censored or censored data. Censored data may contain left censored, right censored and interval censored values, with several lower and upper bounds. In addition to maximum likelihood estimation (MLE), the package provides moment matching (MME), quantile matching (QME) and maximum goodness-of-fit estimation (MGE) methods (available only for non- censored data). Weighted versions of MLE, MME and QME are available. See e.g. Casella & Berger (2002). Statistical inference. Pacific Grove.

r-flashclust

Homepage:
Spack package:
Versions:
1.01-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Implementation of optimal hierarchical clustering.

r-flexclust

Homepage:
Spack package:
Versions:
1.4-0, 1.3-5
Build Dependencies:
r, r-lattice, r-modeltools, r-class
Run Dependencies:
r, r-lattice, r-modeltools, r-class
Description:
Flexible Cluster Algorithms. The main function kcca implements a general framework for k-centroids cluster analysis supporting arbitrary distance measures and centroid computation. Further cluster methods include hard competitive learning, neural gas, and QT clustering. There are numerous visualization methods for cluster results (neighborhood graphs, convex cluster hulls, barcharts of centroids, ...), and bootstrap methods for the analysis of cluster stability.

r-flexmix

Homepage:
Spack package:
Versions:
2.3-17, 2.3-15, 2.3-14
Build Dependencies:
r, r-lattice, r-modeltools, r-nnet
Run Dependencies:
r, r-lattice, r-modeltools, r-nnet
Description:
Flexible Mixture Modeling. A general framework for finite mixtures of regression models using the EM algorithm is implemented. The E-step and all data handling are provided, while the M-step can be supplied by the user to easily define new models. Existing drivers implement mixtures of standard linear models, generalized linear models and model-based clustering.

r-fnn

Homepage:
Spack package:
Versions:
1.1.3, 1.1.2.2, 1.1, 1.0, 0.6-4, 0.6-3, 0.6-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast Nearest Neighbor Search Algorithms and Applications. Cover-tree and kd-tree fast k-nearest neighbor search algorithms and related applications including KNN classification, regression and information measures are implemented.

r-fontawesome

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
r, r-rlang, r-htmltools
Run Dependencies:
r, r-rlang, r-htmltools
Description:
Easily Work with 'Font Awesome' Icons. Easily and flexibly insert 'Font Awesome' icons into 'R Markdown' documents and 'Shiny' apps. These icons can be inserted into HTML content through inline 'SVG' tags or 'i' tags. There is also a utility function for exporting 'Font Awesome' icons as 'PNG' images for those situations where raster graphics are needed.

r-forcats

Homepage:
Spack package:
Versions:
0.5.1, 0.5.0, 0.4.0, 0.3.0, 0.2.0
Build Dependencies:
r, r-ellipsis, r-magrittr, r-rlang, r-tibble
Run Dependencies:
r, r-ellipsis, r-magrittr, r-rlang, r-tibble
Description:
Tools for Working with Categorical Variables (Factors). Helpers for reordering factor levels (including moving specified levels to front, ordering by first appearance, reversing, and randomly shuffling), and tools for modifying factor levels (including collapsing rare levels into other, 'anonymising', and manually 'recoding').

r-foreach

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1, 1.4.7, 1.4.3
Build Dependencies:
r, r-codetools, r-iterators
Run Dependencies:
r, r-codetools, r-iterators
Description:
Provides Foreach Looping Construct. Support for the foreach looping construct. Foreach is an idiom that allows for iterating over elements in a collection, without the use of an explicit loop counter. This package in particular is intended to be used for its return value, rather than for its side effects. In that sense, it is similar to the standard lapply function, but doesn't require the evaluation of a function. Using foreach without side effects also facilitates executing the loop in parallel.

r-forecast

Homepage:
Spack package:
Versions:
8.16, 8.15, 8.13, 8.8, 8.6, 8.2
Build Dependencies:
r, r-colorspace, r-fracdiff, r-ggplot2, r-lmtest, r-magrittr, r-nnet, r-rcpp, r-timedate, r-tseries, r-urca, r-zoo, r-rcpparmadillo
Run Dependencies:
r, r-colorspace, r-fracdiff, r-ggplot2, r-lmtest, r-magrittr, r-nnet, r-rcpp, r-timedate, r-tseries, r-urca, r-zoo, r-rcpparmadillo
Description:
Forecasting Functions for Time Series and Linear Models. Methods and tools for displaying and analysing univariate time series forecasts including exponential smoothing via state space models and automatic ARIMA modelling.

r-foreign

Homepage:
Spack package:
Versions:
0.8-82, 0.8-81, 0.8-72, 0.8-70.2, 0.8-66
Build Dependencies:
r
Run Dependencies:
r
Description:
Read Data Stored by 'Minitab', 'S', 'SAS', 'SPSS', 'Stata', 'Systat', 'Weka', 'dBase', ... Reading and writing data stored by some versions of 'Epi Info', 'Minitab', 'S', 'SAS', 'SPSS', 'Stata', 'Systat', 'Weka', and for reading and writing some 'dBase' files.

r-formatr

Homepage:
Spack package:
Versions:
1.11, 1.7, 1.6, 1.5, 1.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Format R Code Automatically. Provides a function tidy_source() to format R source code. Spaces and indent will be added to the code automatically, and comments will be preserved under certain conditions, so that R code will be more human-readable and tidy. There is also a Shiny app as a user interface in this package.

r-formula

Homepage:
Spack package:
Versions:
1.2-4, 1.2-3, 1.2-2, 1.2-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Extended Model Formulas. Infrastructure for extended formulas with multiple parts on the right-hand side and/or multiple responses on the left-hand side (see <doi:10.18637/jss.v034.i01>).

r-fpc

Homepage:
Spack package:
Versions:
2.2-9, 2.2-3, 2.2-2, 2.1-10
Build Dependencies:
r, r-mass, r-cluster, r-mclust, r-flexmix, r-prabclus, r-class, r-diptest, r-robustbase, r-kernlab, r-trimcluster, r-mvtnorm
Run Dependencies:
r, r-mass, r-cluster, r-mclust, r-flexmix, r-prabclus, r-class, r-diptest, r-robustbase, r-kernlab, r-trimcluster, r-mvtnorm
Description:
Flexible Procedures for Clustering. Various methods for clustering and cluster validation. Fixed point clustering. Linear regression clustering. Clustering by merging Gaussian mixture components. Symmetric and asymmetric discriminant projections for visualisation of the separation of groupings. Cluster validation statistics for distance based clustering including corrected Rand index. Standardisation of cluster validation statistics by random clusterings and comparison between many clustering methods and numbers of clusters based on this. Cluster-wise cluster stability assessment. Methods for estimation of the number of clusters: Calinski-Harabasz, Tibshirani and Walther's prediction strength, Fang and Wang's bootstrap stability. Gaussian/multinomial mixture fitting for mixed continuous/categorical variables. Variable-wise statistics for cluster interpretation. DBSCAN clustering. Interface functions for many clustering methods implemented in R, including estimating the number of clusters with kmeans, pam and clara. Modality diagnosis for Gaussian mixtures. For an overview see package?fpc.

r-fpcompare

Homepage:
Spack package:
Versions:
0.2.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Reliable Comparison of Floating Point Numbers. Comparisons of floating point numbers are problematic due to errors associated with the binary representation of decimal numbers. Despite being aware of these problems, people still use numerical methods that fail to account for these and other rounding errors (this pitfall is the first to be highlighted in Circle 1 of Burns (2012) 'The R Inferno' <https://www.burns-stat.com/pages/Tutor/R_inferno.pdf>). This package provides new relational operators useful for performing floating point number comparisons with a set tolerance.

r-fracdiff

Homepage:
Spack package:
Versions:
1.5-1, 1.4-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Fractionally Differenced ARIMA aka ARFIMA(P,d,q) Models. Maximum likelihood estimation of the parameters of a fractionally differenced ARIMA(p,d,q) model (Haslett and Raftery, Appl.Statistics, 1989); including inference and basic methods. Some alternative algorithms to estimate "H".

r-fs

Homepage:
Spack package:
Versions:
1.5.2, 1.5.0, 1.3.1
Build Dependencies:
r, gmake, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Cross-Platform File System Operations Based on 'libuv'. A cross-platform interface to file system operations, built on top of the 'libuv' C library.

r-futile-logger

Homepage:
Spack package:
Versions:
1.4.3
Build Dependencies:
r, r-lambda-r, r-futile-options
Run Dependencies:
r, r-lambda-r, r-futile-options
Description:
A Logging Utility for R. Provides a simple yet powerful logging utility. Based loosely on log4j, futile.logger takes advantage of R idioms to make logging a convenient and easy to use replacement for cat and print statements.

r-futile-options

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Futile Options Management. A scoped options management framework.

r-future

Homepage:
Spack package:
Versions:
1.24.0, 1.23.0, 1.22.1, 1.21.0, 1.14.0
Build Dependencies:
r, r-digest, r-globals, r-listenv, r-parallelly
Run Dependencies:
r, r-digest, r-globals, r-listenv, r-parallelly
Description:
Unified Parallel and Distributed Processing in R for Everyone. The purpose of this package is to provide a lightweight and unified Future API for sequential and parallel processing of R expression via futures. The simplest way to evaluate an expression in parallel is to use 'x %<-% { expression }' with 'plan(multiprocess)'. This package implements sequential, multicore, multisession, and cluster futures. With these, R expressions can be evaluated on the local machine, in parallel a set of local machines, or distributed on a mix of local and remote machines. Extensions to this package implement additional backends for processing futures via compute cluster schedulers etc. Because of its unified API, there is no need to modify any code in order switch from sequential on the local machine to, say, distributed processing on a remote compute cluster. Another strength of this package is that global variables and functions are automatically identified and exported as needed, making it straightforward to tweak existing code to make use of futures.

r-future-apply

Homepage:
Spack package:
Versions:
1.8.1, 1.7.0, 1.3.0
Build Dependencies:
r, r-future, r-globals
Run Dependencies:
r, r-future, r-globals
Description:
Apply Function to Elements in Parallel using Futures. Implementations of apply(), by(), eapply(), lapply(), Map(), mapply(), replicate(), sapply(), tapply(), and vapply() that can be resolved using any future- supported backend, e.g. parallel on the local machine or distributed on a compute cluster. These future_*apply() functions come with the same pros and cons as the corresponding base-R *apply() functions but with the additional feature of being able to be processed via the future framework.

r-gamlss

Homepage:
Spack package:
Versions:
5.3-4, 5.2-0, 5.1-4, 5.1-3, 5.1-2
Build Dependencies:
r, r-gamlss-data, r-gamlss-dist, r-nlme, r-mass, r-survival
Run Dependencies:
r, r-gamlss-data, r-gamlss-dist, r-nlme, r-mass, r-survival
Description:
Generalised Additive Models for Location Scale and Shape. Functions for fitting the Generalized Additive Models for Location Scale and Shape introduced by Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>. The models use a distributional regression approach where all the parameters of the conditional distribution of the response variable are modelled using explanatory variables.

r-gamlss-data

Homepage:
Spack package:
Versions:
6.0-2, 5.1-4, 5.1-3, 5.1-0
Build Dependencies:
r
Run Dependencies:
r
Description:
GAMLSS Data. Data used as examples in the current two books on Generalised Additive Models for Location Scale and Shape introduced by Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>.

r-gamlss-dist

Homepage:
Spack package:
Versions:
6.0-1, 5.1-7, 5.1-4, 5.1-3, 5.1-1
Build Dependencies:
r, r-mass
Run Dependencies:
r, r-mass
Description:
Distributions for Generalized Additive Models for Location Scale and Shape. A set of distributions which can be used for modelling the response variables in Generalized Additive Models for Location Scale and Shape, Rigby and Stasinopoulos (2005), <doi:10.1111/j.1467-9876.2005.00510.x>. The distributions can be continuous, discrete or mixed distributions. Extra distributions can be created, by transforming, any continuous distribution defined on the real line, to a distribution defined on ranges 0 to infinity or 0 to 1, by using a ''log'' or a ''logit' transformation respectively.

r-gamm4

Homepage:
Spack package:
Versions:
0.2-6
Build Dependencies:
r, r-matrix, r-lme4, r-mgcv
Run Dependencies:
r, r-matrix, r-lme4, r-mgcv
Description:
Generalized Additive Mixed Models using 'mgcv' and 'lme4'. Estimate generalized additive mixed models via a version of function gamm() from 'mgcv', using 'lme4' for estimation.

r-gargle

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r, r-cli, r-fs, r-glue, r-httr, r-jsonlite, r-rappdirs, r-rlang, r-rstudioapi, r-withr
Run Dependencies:
r, r-cli, r-fs, r-glue, r-httr, r-jsonlite, r-rappdirs, r-rlang, r-rstudioapi, r-withr
Description:
Utilities for Working with Google APIs. Provides utilities for working with Google APIs <https://developers.google.com/apis-explorer>. This includes functions and classes for handling common credential types and for preparing, executing, and processing HTTP requests.

r-gbm

Homepage:
Spack package:
Versions:
2.1.8, 2.1.5, 2.1.3
Build Dependencies:
r, r-lattice, r-survival, r-gridextra
Run Dependencies:
r, r-lattice, r-survival, r-gridextra
Description:
Generalized Boosted Regression Models. An implementation of extensions to Freund and Schapire's AdaBoost algorithm and Friedman's gradient boosting machine. Includes regression methods for least squares, absolute loss, t-distribution loss, quantile regression, logistic, multinomial logistic, Poisson, Cox proportional hazards partial likelihood, AdaBoost exponential loss, Huberized hinge loss, and Learning to Rank measures (LambdaMart). Originally developed by Greg Ridgeway.

r-gbrd

Homepage:
Spack package:
Versions:
0.4-11
Build Dependencies:
r
Run Dependencies:
r
Description:
Utilities for processing Rd objects and files. Provides utilities for processing Rd objects and files. Extract argument descriptions and other parts of the help pages of functions.

r-gcrma

Homepage:
Spack package:
Versions:
2.66.0, 2.62.0, 2.56.0, 2.54.0, 2.52.0, 2.50.0, 2.48.0
Build Dependencies:
r, r-affy, r-biobase, r-affyio, r-xvector, r-biostrings, r-biocmanager, r-biocinstaller
Run Dependencies:
r, r-affy, r-biobase, r-affyio, r-xvector, r-biostrings, r-biocmanager, r-biocinstaller
Description:
Background Adjustment Using Sequence Information. Background adjustment using sequence information.

r-gdalutilities

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r, r-sf
Run Dependencies:
r, r-sf
Description:
Wrappers for 'GDAL' Utilities Executables. R's 'sf' package ships with self-contained 'GDAL' executables, including a bare bones interface to several 'GDAL'-related utility programs collectively known as the 'GDAL utilities'. For each of those utilities, this package provides an R wrapper whose formal arguments closely mirror those of the 'GDAL' command line interface. The utilities operate on data stored in files and typically write their output to other files. Therefore, to process data stored in any of R's more common spatial formats (i.e. those supported by the 'sp', 'sf', and 'raster' packages), first write them to disk, then process them with the package's wrapper functions before reading the outputted results back into R. GDAL function arguments introduced in GDAL version 3.2.1 or earlier are supported.

r-gdalutils

Homepage:
Spack package:
Versions:
2.0.3.2, 2.0.1.14
Build Dependencies:
r, r-sp, r-foreach, r-r-utils, r-raster, r-rgdal, gdal
Link Dependencies:
gdal
Run Dependencies:
r, r-sp, r-foreach, r-r-utils, r-raster, r-rgdal
Description:
Wrappers for the Geospatial Data Abstraction Library (GDAL) Utilities.

r-gdata

Homepage:
Spack package:
Versions:
2.18.0, 2.17.0
Build Dependencies:
r, r-gtools, perl
Link Dependencies:
perl
Run Dependencies:
r, r-gtools
Description:
Various R Programming Tools for Data Manipulation. Various R programming tools for data manipulation, including: [1] medical unit conversions ('ConvertMedUnits', 'MedUnits'), [2] combining objects ('bindData', 'cbindX', 'combine', 'interleave'), [3] character vector operations ('centerText', 'startsWith', 'trim'), [4] factor manipulation ('levels', 'reorder.factor', 'mapLevels'), [5] obtaining information about R objects ('object.size', 'elem', 'env', 'humanReadable', 'is.what', 'll', 'keep', 'ls.funs', 'Args','nPairs', 'nobs'), [6] manipulating MS-Excel formatted files ('read.xls', 'installXLSXsupport', 'sheetCount', 'xlsFormats'), [7] generating fixed-width format files ('write.fwf'), [8] extricating components of date & time objects ('getYear', 'getMonth', 'getDay', 'getHour', 'getMin', 'getSec'), [9] operations on columns of data frames ('matchcols', 'rename.vars'), [10] matrix operations ('unmatrix', 'upperTriangle', 'lowerTriangle'), [11] operations on vectors ('case', 'unknownToNA', 'duplicated2', 'trimSum'), [12] operations on data frames ('frameApply', 'wideByFactor'), [13] value of last evaluated expression ('ans'), and [14] wrapper for 'sample' that ensures consistent behavior for both scalar and vector arguments ('resample').

r-gdsfmt

Homepage:
Spack package:
Versions:
1.30.0, 1.26.1, 1.20.0, 1.18.1, 1.16.0, 1.14.1, 1.12.0
Build Dependencies:
r
Run Dependencies:
r
Description:
R Interface to CoreArray Genomic Data Structure (GDS) Files. This package provides a high-level R interface to CoreArray Genomic Data Structure (GDS) data files, which are portable across platforms with hierarchical structure to store multiple scalable array-oriented data sets with metadata information. It is suited for large-scale datasets, especially for data which are much larger than the available random- access memory. The gdsfmt package offers the efficient operations specifically designed for integers of less than 8 bits, since a diploid genotype, like single-nucleotide polymorphism (SNP), usually occupies fewer bits than a byte. Data compression and decompression are available with relatively efficient random access. It is also allowed to read a GDS file in parallel with multiple R processes supported by the package parallel.

r-geiger

Homepage:
Spack package:
Versions:
2.0.7, 2.0.6.2, 2.0.6.1, 2.0.6
Build Dependencies:
r, r-ape, r-mass, r-mvtnorm, r-subplex, r-desolve, r-digest, r-rcpp, r-coda, r-ncbit, r-colorspace, r-phytools
Run Dependencies:
r, r-ape, r-mass, r-mvtnorm, r-subplex, r-desolve, r-digest, r-rcpp, r-coda, r-ncbit, r-colorspace, r-phytools
Description:
Analysis of Evolutionary Diversification. Methods for fitting macroevolutionary models to phylogenetic trees Pennell (2014) <doi:10.1093/bioinformatics/btu181>.

r-genefilter

Homepage:
Spack package:
Versions:
1.76.0, 1.72.1, 1.72.0, 1.66.0, 1.64.0, 1.62.0, 1.60.0, 1.58.1
Build Dependencies:
r, r-biocgenerics, r-annotationdbi, r-annotate, r-biobase, r-survival, r-s4vectors
Run Dependencies:
r, r-biocgenerics, r-annotationdbi, r-annotate, r-biobase, r-survival, r-s4vectors
Description:
Methods for filtering genes from high-throughput experiments. Some basic functions for filtering genes.

r-genelendatabase

Homepage:
Spack package:
Versions:
1.30.0, 1.26.0, 1.20.0, 1.18.0, 1.16.0, 1.14.0, 1.12.0
Build Dependencies:
r, r-rtracklayer, r-genomicfeatures
Run Dependencies:
r, r-rtracklayer, r-genomicfeatures
Description:
Lengths of mRNA transcripts for a number of genomes. Length of mRNA transcripts for a number of genomes and gene ID formats, largely based on UCSC table browser

r-genemeta

Homepage:
Spack package:
Versions:
1.66.0, 1.62.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0
Build Dependencies:
r, r-biobase, r-genefilter
Run Dependencies:
r, r-biobase, r-genefilter
Description:
MetaAnalysis for High Throughput Experiments. A collection of meta- analysis tools for analysing high throughput experimental data

r-geneplotter

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0, 1.62.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0
Build Dependencies:
r, r-biobase, r-biocgenerics, r-lattice, r-annotate, r-annotationdbi, r-rcolorbrewer
Run Dependencies:
r, r-biobase, r-biocgenerics, r-lattice, r-annotate, r-annotationdbi, r-rcolorbrewer
Description:
Graphics related functions for Bioconductor. Functions for plotting genomic data.

r-generics

Homepage:
Spack package:
Versions:
0.1.1, 0.1.0, 0.0.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Common S3 Generics not Provided by Base R Methods Related to Model Fitting. In order to reduce potential package dependencies and conflicts, generics provides a number of commonly used S3 generics.

r-genetics

Homepage:
Spack package:
Versions:
1.3.8.1.3, 1.3.8.1.2
Build Dependencies:
r, r-combinat, r-gdata, r-gtools, r-mass, r-mvtnorm
Run Dependencies:
r, r-combinat, r-gdata, r-gtools, r-mass, r-mvtnorm
Description:
Population Genetics. Classes and methods for handling genetic data. Includes classes to represent genotypes and haplotypes at single markers up to multiple markers on multiple chromosomes. Function include allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium, ...

r-genie3

Homepage:
Spack package:
Versions:
1.16.0, 1.12.0, 1.6.0, 1.4.3, 1.2.1, 1.0.0
Build Dependencies:
r, r-reshape2, r-dplyr
Run Dependencies:
r, r-reshape2, r-dplyr
Description:
GEne Network Inference with Ensemble of trees. This package implements the GENIE3 algorithm for inferring gene regulatory networks from expression data.

r-genomeinfodb

Homepage:
Spack package:
Versions:
1.30.1, 1.26.2, 1.20.0, 1.18.2, 1.16.0, 1.14.0, 1.12.3
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-rcurl, r-genomeinfodbdata
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-rcurl, r-genomeinfodbdata
Description:
Utilities for manipulating chromosome names, including modifying them to follow a particular naming style. Contains data and functions that define and allow translation between different chromosome sequence naming conventions (e.g., "chr1" versus "1"), including a function that attempts to place sequence names in their natural, rather than lexicographic, order.

r-genomeinfodbdata

Homepage:
Spack package:
Versions:
1.2.7, 1.2.1, 1.1.0, 0.99.0
Build Dependencies:
r
Run Dependencies:
r
Description:
for mapping between NCBI taxonomy ID and species. Used by functions in the GenomeInfoDb package.

r-genomicalignments

Homepage:
Spack package:
Versions:
1.30.0, 1.26.0, 1.20.1, 1.18.1, 1.16.0, 1.14.2, 1.12.2
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-biocparallel
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-biocparallel
Description:
Representation and manipulation of short genomic alignments. Provides efficient containers for storing and manipulating short genomic alignments (typically obtained by aligning short reads to a reference genome). This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments.

r-genomicfeatures

Homepage:
Spack package:
Versions:
1.46.4, 1.42.1, 1.36.4, 1.34.8, 1.32.3, 1.30.3, 1.28.5
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-annotationdbi, r-dbi, r-rsqlite, r-rcurl, r-xvector, r-biostrings, r-biocio, r-rtracklayer, r-biomart, r-biobase, r-rmysql
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-annotationdbi, r-dbi, r-rsqlite, r-rcurl, r-xvector, r-biostrings, r-biocio, r-rtracklayer, r-biomart, r-biobase, r-rmysql
Description:
Conveniently import and query gene models. A set of tools and methods for making and manipulating transcript centric annotations. With these tools the user can easily download the genomic locations of the transcripts, exons and cds of a given organism, from either the UCSC Genome Browser or a BioMart database (more sources will be supported in the future). This information is then stored in a local database that keeps track of the relationship between transcripts, exons, cds and genes. Flexible methods are provided for extracting the desired features in a convenient format.

r-genomicranges

Homepage:
Spack package:
Versions:
1.46.1, 1.42.0, 1.36.1, 1.34.0, 1.32.7, 1.30.3, 1.28.6
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-xvector
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-xvector
Description:
Representation and manipulation of genomic intervals. The ability to efficiently represent and manipulate genomic annotations and alignments is playing a central role when it comes to analyzing high-throughput sequencing data (a.k.a. NGS data). The GenomicRanges package defines general purpose containers for storing and manipulating genomic intervals and variables defined along a genome. More specialized containers for representing and manipulating short alignments against a reference genome, or a matrix-like summarization of an experiment, are defined in the GenomicAlignments and SummarizedExperiment packages, respectively. Both packages build on top of the GenomicRanges infrastructure.

r-gensa

Homepage:
Spack package:
Versions:
1.1.7
Build Dependencies:
r
Run Dependencies:
r
Description:
Generalized Simulated Annealing. Performs search for global minimum of a very complex non-linear objective function with a very large number of optima.

r-geojsonsf

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
r, r-rcpp, r-geometries, r-jsonify, r-rapidjsonr, r-sfheaders
Run Dependencies:
r, r-rcpp, r-geometries, r-jsonify, r-rapidjsonr, r-sfheaders
Description:
GeoJSON to Simple Feature Converter. Converts Between GeoJSON and simple feature objects.

r-geometries

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Convert Between R Objects and Geometric Structures. Geometry shapes in 'R' are typically represented by matrices (points, lines), with more complex shapes being lists of matrices (polygons). 'Geometries' will convert various 'R' objects into these shapes. Conversion functions are available at both the 'R' level, and through 'Rcpp'.

r-geomorph

Homepage:
Spack package:
Versions:
4.0.1, 3.3.2, 3.1.2, 3.1.1, 3.0.7, 3.0.5
Build Dependencies:
r, r-rrpp, r-rgl, r-matrix, r-jpeg, r-ape, r-ggplot2, r-geiger
Run Dependencies:
r, r-rrpp, r-rgl, r-matrix, r-jpeg, r-ape, r-ggplot2, r-geiger
Description:
Geometric Morphometric Analyses of 2D/3D Landmark Data. Read, manipulate, and digitize landmark data, generate shape variables via Procrustes analysis for points, curves and surfaces, perform shape analyses, and provide graphical depictions of shapes and patterns of shape variation.

r-geonames

Homepage:
Spack package:
Versions:
0.999
Build Dependencies:
r, r-rjson
Run Dependencies:
r, r-rjson
Description:
Interface to the "Geonames" Spatial Query Web Service. The web service at <https://www.geonames.org/> provides a number of spatial data queries, including administrative area hierarchies, city locations and some country postal code queries. A (free) username is required and rate limits exist.

r-geoquery

Homepage:
Spack package:
Versions:
2.62.2, 2.58.0, 2.52.0, 2.50.5, 2.48.0, 2.46.15, 2.42.0
Build Dependencies:
r, r-biobase, r-httr, r-readr, r-xml2, r-dplyr, r-data-table, r-tidyr, r-magrittr, r-r-utils, r-limma, r-xml, r-rcurl
Run Dependencies:
r, r-biobase, r-httr, r-readr, r-xml2, r-dplyr, r-data-table, r-tidyr, r-magrittr, r-r-utils, r-limma, r-xml, r-rcurl
Description:
Get data from NCBI Gene Expression Omnibus (GEO). The NCBI Gene Expression Omnibus (GEO) is a public repository of microarray data. Given the rich and varied nature of this resource, it is only natural to want to apply BioConductor tools to these data. GEOquery is the bridge between GEO and BioConductor.

r-geor

Homepage:
Spack package:
Versions:
1.8-1, 1.7-5.2.1
Build Dependencies:
r, r-mass, r-sp, r-splancs, r-randomfields
Run Dependencies:
r, r-mass, r-sp, r-splancs, r-randomfields
Description:
Analysis of Geostatistical Data. Geostatistical analysis including variogram-based, likelihood-based and Bayesian methods. Software companion for Diggle and Ribeiro (2007) <doi:10.1007/978-0-387-48536-2>.

r-geosphere

Homepage:
Spack package:
Versions:
1.5-14, 1.5-10, 1.5-7, 1.5-5
Build Dependencies:
r, r-sp
Run Dependencies:
r, r-sp
Description:
Spherical Trigonometry. Spherical trigonometry for geographic applications. That is, compute distances and related measures for angular (longitude/latitude) locations.

r-gert

Homepage:
Spack package:
Versions:
1.5.0, 1.0.2
Build Dependencies:
r, r-askpass, r-credentials, r-openssl, r-rstudioapi, r-sys, r-zip, libgit2
Link Dependencies:
libgit2
Run Dependencies:
r, r-askpass, r-credentials, r-openssl, r-rstudioapi, r-sys, r-zip
Description:
Simple Git Client for R. Simple git client for R based on 'libgit2' with support for SSH and HTTPS remotes. All functions in 'gert' use basic R data types (such as vectors and data-frames) for their arguments and return values. User credentials are shared with command line 'git' through the git-credential store and ssh keys stored on disk or ssh- agent.

r-getopt

Homepage:
Spack package:
Versions:
1.20.3, 1.20.2, 1.20.1
Build Dependencies:
r
Run Dependencies:
r
Description:
C-Like 'getopt' Behavior. Package designed to be used with Rscript to write "#!" shebang scripts that accept short and long flags/options. Many users will prefer using instead the packages optparse or argparse which add extra features like automatically generated help option and usage, support for default values, positional argument support, etc.

r-getoptlong

Homepage:
Spack package:
Versions:
1.0.5, 0.1.7, 0.1.6
Build Dependencies:
r, r-rjson, r-globaloptions, r-crayon, perl
Link Dependencies:
perl
Run Dependencies:
r, r-rjson, r-globaloptions, r-crayon
Description:
Parsing Command-Line Arguments and Simple Variable Interpolation. This is yet another command-line argument parser which wraps the powerful Perl module Getopt::Long and with some adaptation for easier use in R. It also provides a simple way for variable interpolation in R.

r-ggally

Homepage:
Spack package:
Versions:
2.1.2, 2.1.0, 1.4.0, 1.3.2
Build Dependencies:
r, r-ggplot2, r-dplyr, r-forcats, r-gtable, r-lifecycle, r-plyr, r-progress, r-rcolorbrewer, r-reshape, r-rlang, r-scales, r-tidyr, openssl
Link Dependencies:
openssl
Run Dependencies:
r, r-ggplot2, r-dplyr, r-forcats, r-gtable, r-lifecycle, r-plyr, r-progress, r-rcolorbrewer, r-reshape, r-rlang, r-scales, r-tidyr
Description:
Extension to 'ggplot2'. The R package 'ggplot2' is a plotting system based on the grammar of graphics. 'GGally' extends 'ggplot2' by adding several functions to reduce the complexity of combining geometric objects with transformed data. Some of these functions include a pairwise plot matrix, a two group pairwise plot matrix, a parallel coordinates plot, a survival plot, and several functions to plot networks.

r-ggbeeswarm

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
r, r-beeswarm, r-ggplot2, r-vipor
Run Dependencies:
r, r-beeswarm, r-ggplot2, r-vipor
Description:
Categorical Scatter (Violin Point) Plots. Provides two methods of plotting categorical scatter plots such that the arrangement of points within a category reflects the density of data at that region, and avoids over-plotting.

r-ggbio

Homepage:
Spack package:
Versions:
1.42.0, 1.38.0, 1.32.0, 1.30.0, 1.28.5, 1.26.1, 1.24.1
Build Dependencies:
r, r-biocgenerics, r-ggplot2, r-gridextra, r-scales, r-reshape2, r-gtable, r-hmisc, r-biovizbase, r-biobase, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-genomicalignments, r-bsgenome, r-variantannotation, r-rtracklayer, r-genomicfeatures, r-organismdbi, r-ggally, r-ensembldb, r-annotationdbi, r-annotationfilter, r-rlang
Run Dependencies:
r, r-biocgenerics, r-ggplot2, r-gridextra, r-scales, r-reshape2, r-gtable, r-hmisc, r-biovizbase, r-biobase, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-biostrings, r-rsamtools, r-genomicalignments, r-bsgenome, r-variantannotation, r-rtracklayer, r-genomicfeatures, r-organismdbi, r-ggally, r-ensembldb, r-annotationdbi, r-annotationfilter, r-rlang
Description:
Visualization tools for genomic data. The ggbio package extends and specializes the grammar of graphics for biological data. The graphics are designed to answer common scientific questions, in particular those often asked of high throughput genomics data. All core Bioconductor data structures are supported, where appropriate. The package supports detailed views of particular genomic regions, as well as genome-wide overviews. Supported overviews include ideograms and grand linear views. High-level plots include sequence fragment length, edge-linked interval to data view, mismatch pileup, and several splicing summaries.

r-ggdendro

Homepage:
Spack package:
Versions:
0.1.22, 0.1-20
Build Dependencies:
r, r-mass, r-ggplot2
Run Dependencies:
r, r-mass, r-ggplot2
Description:
Create Dendrograms and Tree Diagrams Using 'ggplot2'. This is a set of tools for dendrograms and tree plots using 'ggplot2'. The 'ggplot2' philosophy is to clearly separate data from the presentation. Unfortunately the plot method for dendrograms plots directly to a plot device without exposing the data. The 'ggdendro' package resolves this by making available functions that extract the dendrogram plot data. The package provides implementations for tree, rpart, as well as diana and agnes cluster diagrams.

r-ggforce

Homepage:
Spack package:
Versions:
0.3.3, 0.3.2, 0.3.1
Build Dependencies:
r, r-ggplot2, r-rcpp, r-scales, r-mass, r-tweenr, r-gtable, r-rlang, r-polyclip, r-tidyselect, r-withr, r-rcppeigen
Run Dependencies:
r, r-ggplot2, r-rcpp, r-scales, r-mass, r-tweenr, r-gtable, r-rlang, r-polyclip, r-tidyselect, r-withr, r-rcppeigen
Description:
Accelerating 'ggplot2'. The aim of 'ggplot2' is to aid in visual data investigations. This focus has led to a lack of facilities for composing specialised plots. 'ggforce' aims to be a collection of mainly new stats and geoms that fills this gap. All additional functionality is aimed to come through the official extension system so using 'ggforce' should be a stable experience.

r-ggfun

Homepage:
Spack package:
Versions:
0.0.5, 0.0.4
Build Dependencies:
r, r-ggplot2, r-rlang
Run Dependencies:
r, r-ggplot2, r-rlang
Description:
Miscellaneous Functions for 'ggplot2'. Useful functions to edit 'ggplot' object (e.g., setting fonts for theme and layers, adding rounded rectangle as background for each of the legends).

r-ggjoy

Homepage:
Spack package:
Versions:
0.4.1, 0.4.0, 0.3.0, 0.2.0
Build Dependencies:
r, r-ggplot2, r-ggridges
Run Dependencies:
r, r-ggplot2, r-ggridges
Description:
Joyplots in 'ggplot2'. Joyplots provide a convenient way of visualizing changes in distributions over time or space.

r-ggmap

Homepage:
Spack package:
Versions:
3.0.0, 2.6.2, 2.6.1
Build Dependencies:
r, r-ggplot2, r-rgooglemaps, r-png, r-plyr, r-rjson, r-jpeg, r-digest, r-scales, r-dplyr, r-bitops, r-glue, r-httr, r-stringr, r-purrr, r-magrittr, r-tibble, r-tidyr, r-proto, r-reshape2, r-mapproj, r-geosphere
Run Dependencies:
r, r-ggplot2, r-rgooglemaps, r-png, r-plyr, r-rjson, r-jpeg, r-digest, r-scales, r-dplyr, r-bitops, r-glue, r-httr, r-stringr, r-purrr, r-magrittr, r-tibble, r-tidyr, r-proto, r-reshape2, r-mapproj, r-geosphere
Description:
Spatial Visualization with ggplot2. A collection of functions to visualize spatial data and models on top of static maps from various online sources (e.g Google Maps and Stamen Maps). It includes tools common to those tasks, including functions for geolocation and routing.

r-ggplot2

Homepage:
Spack package:
Versions:
3.3.5, 3.3.3, 3.2.0, 3.1.1, 2.2.1, 2.1.0
Build Dependencies:
r, r-digest, r-glue, r-gtable, r-isoband, r-mass, r-mgcv, r-rlang, r-scales, r-tibble, r-withr, r-plyr, r-reshape2, r-lazyeval, r-viridislite
Run Dependencies:
r, r-digest, r-glue, r-gtable, r-isoband, r-mass, r-mgcv, r-rlang, r-scales, r-tibble, r-withr, r-plyr, r-reshape2, r-lazyeval, r-viridislite
Description:
Create Elegant Data Visualisations Using the Grammar of Graphics. A system for 'declaratively' creating graphics, based on "The Grammar of Graphics". You provide the data, tell 'ggplot2' how to map variables to aesthetics, what graphical primitives to use, and it takes care of the details.

r-ggplotify

Homepage:
Spack package:
Versions:
0.1.0, 0.0.5, 0.0.3
Build Dependencies:
r, r-ggplot2, r-gridgraphics, r-yulab-utils, r-rvcheck
Run Dependencies:
r, r-ggplot2, r-gridgraphics, r-yulab-utils, r-rvcheck
Description:
Convert Plot to 'grob' or 'ggplot' Object. Convert plot function call (using expression or formula) to 'grob' or 'ggplot' object that compatible to the 'grid' and 'ggplot2' ecosystem. With this package, we are able to e.g. using 'cowplot' to align plots produced by 'base' graphics, 'ComplexHeatmap', 'eulerr', 'grid', 'lattice', 'magick', 'pheatmap', 'vcd' etc. by converting them to 'ggplot' objects.

r-ggpubr

Homepage:
Spack package:
Versions:
0.4.0, 0.2.2, 0.2.1, 0.2, 0.1.2
Build Dependencies:
r, r-ggplot2, r-ggrepel, r-ggsci, r-tidyr, r-plyr, r-purrr, r-dplyr, r-cowplot, r-ggsignif, r-scales, r-gridextra, r-glue, r-polynom, r-rlang, r-rstatix, r-tibble, r-magrittr
Run Dependencies:
r, r-ggplot2, r-ggrepel, r-ggsci, r-tidyr, r-plyr, r-purrr, r-dplyr, r-cowplot, r-ggsignif, r-scales, r-gridextra, r-glue, r-polynom, r-rlang, r-rstatix, r-tibble, r-magrittr
Description:
'ggplot2' Based Publication Ready Plots. The 'ggplot2' package is excellent and flexible for elegant data visualization in R. However the default generated plots requires some formatting before we can send them for publication. Furthermore, to customize a 'ggplot', the syntax is opaque and this raises the level of difficulty for researchers with no advanced R programming skills. 'ggpubr' provides some easy-to-use functions for creating and customizing 'ggplot2'- based publication ready plots.

r-ggraph

Homepage:
Spack package:
Versions:
2.0.5, 2.0.4, 2.0.0
Build Dependencies:
r, r-ggplot2, r-rcpp, r-dplyr, r-ggforce, r-igraph, r-scales, r-mass, r-digest, r-gtable, r-ggrepel, r-viridis, r-rlang, r-tidygraph, r-graphlayouts, r-withr
Run Dependencies:
r, r-ggplot2, r-rcpp, r-dplyr, r-ggforce, r-igraph, r-scales, r-mass, r-digest, r-gtable, r-ggrepel, r-viridis, r-rlang, r-tidygraph, r-graphlayouts, r-withr
Description:
An Implementation of Grammar of Graphics for Graphs and Networks. The grammar of graphics as implemented in ggplot2 is a poor fit for graph and network visualizations due to its reliance on tabular data input. ggraph is an extension of the ggplot2 API tailored to graph visualizations and provides the same flexible approach to building up plots layer by layer.

r-ggrepel

Homepage:
Spack package:
Versions:
0.9.1, 0.9.0, 0.8.1, 0.8.0, 0.6.5
Build Dependencies:
r, r-ggplot2, r-rcpp, r-rlang, r-scales
Run Dependencies:
r, r-ggplot2, r-rcpp, r-rlang, r-scales
Description:
Repulsive Text and Label Geoms for 'ggplot2'. Provides text and label geoms for 'ggplot2' that help to avoid overlapping text labels. Labels repel away from each other and away from the data points.

r-ggridges

Homepage:
Spack package:
Versions:
0.5.3, 0.5.1, 0.5.0, 0.4.1, 0.4.0
Build Dependencies:
r, r-ggplot2, r-plyr, r-scales, r-withr
Run Dependencies:
r, r-ggplot2, r-plyr, r-scales, r-withr
Description:
Ridgeline Plots in 'ggplot2'. Ridgeline plots provide a convenient way of visualizing changes in distributions over time or space. This package enables the creation of such plots in 'ggplot2'.

r-ggsci

Homepage:
Spack package:
Versions:
2.9, 2.8, 2.4
Build Dependencies:
r, r-scales, r-ggplot2
Run Dependencies:
r, r-scales, r-ggplot2
Description:
Scientific Journal and Sci-Fi Themed Color Palettes for 'ggplot2'. collection of 'ggplot2' color palettes inspired by plots in scientific journals, data visualization libraries, science fiction movies, and TV shows.

r-ggsignif

Homepage:
Spack package:
Versions:
0.6.3, 0.6.0
Build Dependencies:
r, r-ggplot2
Run Dependencies:
r, r-ggplot2
Description:
Significance Brackets for 'ggplot2'. Enrich your 'ggplots' with group- wise comparisons. This package provides an easy way to indicate if two groups are significantly different. Commonly this is shown by a bracket on top connecting the groups of interest which itself is annotated with the level of significance (NS, *, **, ***). The package provides a single layer (geom_signif()) that takes the groups for comparison and the test (t.test(), wilcox.text() etc.) as arguments and adds the annotation to the plot.

r-ggthemes

Homepage:
Spack package:
Versions:
4.2.4, 4.2.0
Build Dependencies:
r, r-ggplot2, r-purrr, r-scales, r-stringr, r-tibble
Run Dependencies:
r, r-ggplot2, r-purrr, r-scales, r-stringr, r-tibble
Description:
Extra Themes, Scales and Geoms for 'ggplot2'. Some extra themes, geoms, and scales for 'ggplot2'. Provides 'ggplot2' themes and scales that replicate the look of plots by Edward Tufte, Stephen Few, 'Fivethirtyeight', 'The Economist', 'Stata', 'Excel', and 'The Wall Street Journal', among others. Provides 'geoms' for Tufte's box plot and range frame.

r-ggtree

Homepage:
Spack package:
Versions:
3.2.1
Build Dependencies:
r, r-ape, r-aplot, r-dplyr, r-ggplot2, r-magrittr, r-purrr, r-rlang, r-ggfun, r-yulab-utils, r-tidyr, r-tidytree, r-treeio, r-scales
Run Dependencies:
r, r-ape, r-aplot, r-dplyr, r-ggplot2, r-magrittr, r-purrr, r-rlang, r-ggfun, r-yulab-utils, r-tidyr, r-tidytree, r-treeio, r-scales
Description:
an R package for visualization of tree and annotation data. 'ggtree' extends the 'ggplot2' plotting system which implemented the grammar of graphics. 'ggtree' is designed for visualization and annotation of phylogenetic trees and other tree-like structures with their annotation data.

r-ggvis

Homepage:
Spack package:
Versions:
0.4.7, 0.4.4, 0.4.3, 0.4.2
Build Dependencies:
r, r-assertthat, r-jsonlite, r-shiny, r-magrittr, r-dplyr, r-rlang, r-htmltools, r-lazyeval
Run Dependencies:
r, r-assertthat, r-jsonlite, r-shiny, r-magrittr, r-dplyr, r-rlang, r-htmltools, r-lazyeval
Description:
Interactive Grammar of Graphics. An implementation of an interactive grammar of graphics, taking the best parts of 'ggplot2', combining them with the reactive framework from 'shiny' and web graphics from 'vega'.

r-gh

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0, 1.0.1
Build Dependencies:
r, r-cli, r-gitcreds, r-httr, r-ini, r-jsonlite
Run Dependencies:
r, r-cli, r-gitcreds, r-httr, r-ini, r-jsonlite
Description:
'GitHub' 'API'. Minimal client to access the 'GitHub' 'API'.

r-gistr

Homepage:
Spack package:
Versions:
0.9.0, 0.4.2, 0.4.0, 0.3.6
Build Dependencies:
r, r-jsonlite, r-crul, r-httr, r-magrittr, r-assertthat, r-knitr, r-rmarkdown, r-dplyr
Run Dependencies:
r, r-jsonlite, r-crul, r-httr, r-magrittr, r-assertthat, r-knitr, r-rmarkdown, r-dplyr
Description:
Work with 'GitHub' 'Gists'. Work with 'GitHub' 'gists' from 'R' (e.g., <https://en.wikipedia.org/wiki/GitHub#Gist>, <https://docs.github.com/en/github/writing-on-github/creating-gists/>). A 'gist' is simply one or more files with code/text/images/etc. This package allows the user to create new 'gists', update 'gists' with new files, rename files, delete files, get and delete 'gists', star and 'un- star' 'gists', fork 'gists', open a 'gist' in your default browser, get embed code for a 'gist', list 'gist' 'commits', and get rate limit information when 'authenticated'. Some requests require authentication and some do not. 'Gists' website: <https://gist.github.com/>.

r-git2r

Homepage:
Spack package:
Versions:
0.29.0, 0.28.0, 0.27.1, 0.26.1, 0.26.0, 0.18.0, 0.15.0
Build Dependencies:
r, libgit2, zlib, openssl, libssh2
Link Dependencies:
libgit2, zlib, openssl, libssh2
Run Dependencies:
r
Description:
Provides Access to Git Repositories. Interface to the 'libgit2' library, which is a pure C implementation of the 'Git' core methods. Provides access to 'Git' repositories to extract data and running some basic 'Git' commands.

r-gitcreds

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
r
Run Dependencies:
r, git
Description:
Query 'git' Credentials from 'R'. Query, set, delete credentials from the 'git' credential store. Manage 'GitHub' tokens and other 'git' credentials. This package is to be used by other packages that need to authenticate to 'GitHub' and/or other 'git' repositories.

r-glimma

Homepage:
Spack package:
Versions:
2.4.0, 2.0.0, 1.12.0, 1.10.1, 1.8.2, 1.6.0, 1.4.0
Build Dependencies:
r, r-htmlwidgets, r-edger, r-deseq2, r-limma, r-summarizedexperiment, r-jsonlite, r-s4vectors, r-biobase, r-scater
Run Dependencies:
r, r-htmlwidgets, r-edger, r-deseq2, r-limma, r-summarizedexperiment, r-jsonlite, r-s4vectors, r-biobase, r-scater
Description:
Interactive HTML graphics. This package generates interactive visualisations for analysis of RNA- sequencing data using output from limma, edgeR or DESeq2 packages in an HTML page. The interactions are built on top of the popular static representations of analysis results in order to provide additional information.

r-glmnet

Homepage:
Spack package:
Versions:
4.1-3, 4.1, 2.0-18, 2.0-13, 2.0-5
Build Dependencies:
r, r-matrix, r-foreach, r-shape, r-survival, r-rcpp, r-rcppeigen
Run Dependencies:
r, r-matrix, r-foreach, r-shape, r-survival, r-rcpp, r-rcppeigen
Description:
Lasso and Elastic-Net Regularized Generalized Linear Models. Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models, Poisson regression and the Cox model. Two recent additions are the multiple-response Gaussian, and the grouped multinomial. The algorithm uses cyclical coordinate descent in a path- wise fashion, as described in the paper linked to via the URL below.

r-globaloptions

Homepage:
Spack package:
Versions:
0.1.2, 0.1.0, 0.0.12
Build Dependencies:
r
Run Dependencies:
r
Description:
Generate Functions to Get or Set Global Options. It provides more controls on the option values such as validation and filtering on the values, making options invisible or private.

r-globals

Homepage:
Spack package:
Versions:
0.14.0, 0.12.4
Build Dependencies:
r, r-codetools
Run Dependencies:
r, r-codetools
Description:
Identify Global Objects in R Expressions. Identifies global ("unknown" or "free") objects in R expressions by code inspection using various strategies, e.g. conservative or liberal. The objective of this package is to make it as simple as possible to identify global objects for the purpose of exporting them in distributed compute environments.

r-globaltest

Homepage:
Spack package:
Versions:
5.48.0, 5.44.0
Build Dependencies:
r, r-survival, r-biobase, r-annotationdbi, r-annotate
Run Dependencies:
r, r-survival, r-biobase, r-annotationdbi, r-annotate
Description:
Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set Testing. The global test tests groups of covariates (or features) for association with a response variable. This package implements the test with diagnostic plots and multiple testing utilities, along with several functions to facilitate the use of this test for gene set testing of GO and KEGG terms.

r-glue

Homepage:
Spack package:
Versions:
1.6.1, 1.6.0, 1.4.2, 1.4.1, 1.4.0, 1.3.1, 1.3.0, 1.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Interpreted String Literals. An implementation of interpreted string literals, inspired by Python's Literal String Interpolation <https://www.python.org/dev/peps/pep-0498/> and Docstrings <https://www.python.org/dev/peps/pep-0257/> and Julia's Triple-Quoted String Literals <https://docs.julialang.org/en/stable/ manual/strings/#triple-quoted-string-literals>.

r-gmodels

Homepage:
Spack package:
Versions:
2.18.1, 2.16.2
Build Dependencies:
r, r-gdata, r-mass
Run Dependencies:
r, r-gdata, r-mass
Description:
Various R programming tools for model fitting.

r-gmp

Homepage:
Spack package:
Versions:
0.6-2.1, 0.6-2, 0.5-13.5, 0.5-13.4, 0.5-13.1
Build Dependencies:
r, gmp
Link Dependencies:
gmp
Run Dependencies:
r
Description:
Multiple Precision Arithmetic. Multiple Precision Arithmetic (big integers and rationals, prime number tests, matrix computation), "arithmetic without limitations" using the C library GMP (GNU Multiple Precision Arithmetic).

r-go-db

Homepage:
Spack package:
Versions:
3.14.0, 3.12.1, 3.4.1
Build Dependencies:
r, r-annotationdbi
Run Dependencies:
r, r-annotationdbi
Description:
A set of annotation maps describing the entire Gene Ontology. A set of annotation maps describing the entire Gene Ontology assembled using data from GO.

r-goftest

Homepage:
Spack package:
Versions:
1.2-3, 1.2-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Classical Goodness-of-Fit Tests for Univariate Distributions. Cramer-Von Mises and Anderson-Darling tests of goodness-of-fit for continuous univariate distributions, using efficient algorithms.

r-gofuncr

Homepage:
Spack package:
Versions:
1.14.0, 1.10.0, 1.4.0, 1.2.0, 1.0.0
Build Dependencies:
r, r-vioplot, r-rcpp, r-mapplots, r-gtools, r-genomicranges, r-iranges, r-annotationdbi
Run Dependencies:
r, r-vioplot, r-rcpp, r-mapplots, r-gtools, r-genomicranges, r-iranges, r-annotationdbi
Description:
Gene ontology enrichment using FUNC. GOfuncR performs a gene ontology enrichment analysis based on the ontology enrichment software FUNC. GO- annotations are obtained from OrganismDb or OrgDb packages ('Homo.sapiens' by default); the GO-graph is included in the package and updated regularly (27-Mar-2019). GOfuncR provides the standard candidate vs. background enrichment analysis using the hypergeometric test, as well as three additional tests: (i) the Wilcoxon rank-sum test that is used when genes are ranked, (ii) a binomial test that is used when genes are associated with two counts and (iii) a Chi-square or Fisher's exact test that is used in cases when genes are associated with four counts. To correct for multiple testing and interdependency of the tests, family-wise error rates are computed based on random permutations of the gene-associated variables. GOfuncR also provides tools for exploring the ontology graph and the annotations, and options to take gene-length or spatial clustering of genes into account. It is also possible to provide custom gene coordinates, annotations and ontologies.

r-googledrive

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
r, r-cli, r-gargle, r-glue, r-httr, r-jsonlite, r-lifecycle, r-magrittr, r-pillar, r-purrr, r-rlang, r-tibble, r-uuid, r-vctrs, r-withr
Run Dependencies:
r, r-cli, r-gargle, r-glue, r-httr, r-jsonlite, r-lifecycle, r-magrittr, r-pillar, r-purrr, r-rlang, r-tibble, r-uuid, r-vctrs, r-withr
Description:
An Interface to Google Drive. Manage Google Drive files from R.

r-googlesheets4

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
r, r-cellranger, r-cli, r-curl, r-gargle, r-glue, r-googledrive, r-httr, r-ids, r-magrittr, r-purrr, r-rematch2, r-rlang, r-tibble, r-vctrs
Run Dependencies:
r, r-cellranger, r-cli, r-curl, r-gargle, r-glue, r-googledrive, r-httr, r-ids, r-magrittr, r-purrr, r-rematch2, r-rlang, r-tibble, r-vctrs
Description:
Access Google Sheets using the Sheets API V4. Interact with Google Sheets through the Sheets API v4 <https://developers.google.com/sheets/api>. "API" is an acronym for "application programming interface"; the Sheets API allows users to interact with Google Sheets programmatically, instead of via a web browser. The "v4" refers to the fact that the Sheets API is currently at version 4. This package can read and write both the metadata and the cell data in a Sheet.

r-googlevis

Homepage:
Spack package:
Versions:
0.6.11, 0.6.9, 0.6.4, 0.6.3, 0.6.0
Build Dependencies:
r, r-jsonlite
Run Dependencies:
r, r-jsonlite
Description:
R Interface to Google Charts. R interface to Google Charts API, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. A modern browser with an Internet connection is required and for some charts a Flash player. The data remains local and is not uploaded to Google.

r-goplot

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
r, r-ggplot2, r-ggdendro, r-gridextra, r-rcolorbrewer
Run Dependencies:
r, r-ggplot2, r-ggdendro, r-gridextra, r-rcolorbrewer
Description:
Visualization of Functional Analysis Data. Implementation of multilayered visualizations for enhanced graphical representation of functional analysis data. It combines and integrates omics data derived from expression and functional annotation enrichment analyses. Its plotting functions have been developed with an hierarchical structure in mind: starting from a general overview to identify the most enriched categories (modified bar plot, bubble plot) to a more detailed one displaying different types of relevant information for the molecules in a given set of categories (circle plot, chord plot, cluster plot, Venn diagram, heatmap).

r-gosemsim

Homepage:
Spack package:
Versions:
2.20.0, 2.16.1, 2.10.0, 2.8.0, 2.6.2, 2.4.1, 2.2.0
Build Dependencies:
r, r-annotationdbi, r-go-db, r-rcpp
Run Dependencies:
r, r-annotationdbi, r-go-db, r-rcpp
Description:
GO-terms Semantic Similarity Measures. The semantic comparisons of Gene Ontology (GO) annotations provide quantitative ways to compute similarities between genes and gene groups, and have became important basis for many bioinformatics analysis approaches. GOSemSim is an R package for semantic similarity computation among GO terms, sets of GO terms, gene products and gene clusters. GOSemSim implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively.

r-goseq

Homepage:
Spack package:
Versions:
1.46.0, 1.42.0, 1.36.0, 1.34.1, 1.32.0, 1.30.0, 1.28.0
Build Dependencies:
r, r-biasedurn, r-genelendatabase, r-mgcv, r-annotationdbi, r-go-db, r-biocgenerics
Run Dependencies:
r, r-biasedurn, r-genelendatabase, r-mgcv, r-annotationdbi, r-go-db, r-biocgenerics
Description:
Gene Ontology analyser for RNA-seq and other length biased data. Detects Gene Ontology and/or other user defined categories which are over/under represented in RNA-seq data

r-gostats

Homepage:
Spack package:
Versions:
2.60.0, 2.56.0, 2.50.0, 2.48.0, 2.46.0, 2.44.0, 2.42.0
Build Dependencies:
r, r-biobase, r-category, r-graph, r-annotationdbi, r-go-db, r-rbgl, r-annotate, r-annotationforge, r-rgraphviz
Run Dependencies:
r, r-biobase, r-category, r-graph, r-annotationdbi, r-go-db, r-rbgl, r-annotate, r-annotationforge, r-rgraphviz
Description:
Tools for manipulating GO and microarrays. A set of tools for interacting with GO and microarray data. A variety of basic manipulation tools for graphs, hypothesis testing and other simple calculations.

r-gower

Homepage:
Spack package:
Versions:
0.2.2, 0.2.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Gower's Distance. Compute Gower's distance (or similarity) coefficient between records. Compute the top-n matches between records. Core algorithms are executed in parallel on systems supporting OpenMP.

r-gparotation

Homepage:
Spack package:
Versions:
2014.11-1
Build Dependencies:
r
Run Dependencies:
r
Description:
GPA Factor Rotation. Gradient Projection Algorithm Rotation for Factor Analysis. See GPArotation.Intro for more details.

r-gplots

Homepage:
Spack package:
Versions:
3.1.1, 3.0.1.1, 3.0.1
Build Dependencies:
r, r-gtools, r-catools, r-kernsmooth, r-gdata
Run Dependencies:
r, r-gtools, r-catools, r-kernsmooth, r-gdata
Description:
Various R Programming Tools for Plotting Data. Various R programming tools for plotting data, including: [1] calculating and plotting locally smoothed summary function as ('bandplot', 'wapply'), [2] enhanced versions of standard plots ('barplot2', 'boxplot2', 'heatmap.2', 'smartlegend'), [3] manipulating colors ('col2hex', 'colorpanel', 'redgreen', 'greenred', 'bluered', 'redblue', 'rich.colors'), [4] calculating and plotting two-dimensional data summaries ('ci2d', 'hist2d'), [5] enhanced regression diagnostic plots ('lmplot2', 'residplot'), [6] formula-enabled interface to 'stats::lowess' function ('lowess'), [7] displaying textual data in plots ('textplot', 'sinkplot'), [8] plotting a matrix where each cell contains a dot whose size reflects the relative magnitude of the elements ('balloonplot'), [9] plotting "Venn" diagrams ('venn'), [10] displaying Open-Office style plots ('ooplot'), [11] plotting multiple data on same region, with separate axes ('overplot'), [12] plotting means and confidence intervals ('plotCI', 'plotmeans'), [13] spacing points in an x-y plot so they don't overlap ('space').

r-graph

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0, 1.62.0, 1.60.0, 1.58.2, 1.56.0, 1.54.0
Build Dependencies:
r, r-biocgenerics
Run Dependencies:
r, r-biocgenerics
Description:
A package to handle graph data structures. A package that implements some simple graph handling capabilities.

r-graphlayouts

Homepage:
Spack package:
Versions:
0.8.0, 0.7.1, 0.5.0
Build Dependencies:
r, r-igraph, r-rcpp, r-rcpparmadillo
Run Dependencies:
r, r-igraph, r-rcpp, r-rcpparmadillo
Description:
Additional Layout Algorithms for Network Visualizations. Several new layout algorithms to visualize networks are provided which are not part of 'igraph'. Most are based on the concept of stress majorization by Gansner et al. (2004) <doi:10.1007/978-3-540-31843-9_25>. Some more specific algorithms allow to emphasize hidden group structures in networks or focus on specific nodes.

r-grbase

Homepage:
Spack package:
Versions:
1.8-6.7, 1.8-3.4
Build Dependencies:
r, r-graph, r-rgraphviz, r-rbgl, r-igraph, r-magrittr, r-matrix, r-rcpp, r-rcppeigen, r-rcpparmadillo
Run Dependencies:
r, r-graph, r-rgraphviz, r-rbgl, r-igraph, r-magrittr, r-matrix, r-rcpp, r-rcppeigen, r-rcpparmadillo
Description:
A Package for Graphical Modelling in R. The 'gRbase' package provides graphical modelling features used by e.g. the packages 'gRain', 'gRim' and 'gRc'. 'gRbase' implements graph algorithms including (i) maximum cardinality search (for marked and unmarked graphs). (ii) moralization, (iii) triangulation, (iv) creation of junction tree. 'gRbase' facilitates array operations, 'gRbase' implements functions for testing for conditional independence. 'gRbase' illustrates how hierarchical log- linear models may be implemented and describes concept of graphical meta data. The facilities of the package are documented in the book by Hojsgaard, Edwards and Lauritzen (2012, <doi:10.1007/978-1-4614-2299-0>) and in the paper by Dethlefsen and Hojsgaard, (2005, <doi:10.18637/jss.v014.i17>). Please see 'citation("gRbase")' for citation details. NOTICE 'gRbase' requires that the packages graph, 'Rgraphviz' and 'RBGL' are installed from 'bioconductor'; for installation instructions please refer to the web page given below.

r-gridbase

Homepage:
Spack package:
Versions:
0.4-7
Build Dependencies:
r
Run Dependencies:
r
Description:
Integration of base and grid graphics.

r-gridextra

Homepage:
Spack package:
Versions:
2.3, 2.2.1
Build Dependencies:
r, r-gtable
Run Dependencies:
r, r-gtable
Description:
Miscellaneous Functions for "Grid" Graphics. Provides a number of user- level functions to work with "grid" graphics, notably to arrange multiple grid-based plots on a page, and draw tables.

r-gridgraphics

Homepage:
Spack package:
Versions:
0.5-1, 0.4-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Redraw Base Graphics Using 'grid' Graphics. Functions to convert a page of plots drawn with the 'graphics' package into identical output drawn with the 'grid' package. The result looks like the original 'graphics'-based plot, but consists of 'grid' grobs and viewports that can then be manipulated with 'grid' functions (e.g., edit grobs and revisit viewports).

r-gsa

Homepage:
Spack package:
Versions:
1.03.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Gene Set Analysis.

r-gsalib

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Utility Functions For GATK. This package contains utility functions used by the Genome Analysis Toolkit (GATK) to load tables and plot data. The GATK is a toolkit for variant discovery in high-throughput sequencing data.

r-gseabase

Homepage:
Spack package:
Versions:
1.56.0, 1.52.1, 1.46.0, 1.44.0, 1.42.0, 1.40.1, 1.38.2
Build Dependencies:
r, r-biocgenerics, r-biobase, r-annotate, r-graph, r-annotationdbi, r-xml
Run Dependencies:
r, r-biocgenerics, r-biobase, r-annotate, r-graph, r-annotationdbi, r-xml
Description:
Gene set enrichment data structures and methods. This package provides classes and methods to support Gene Set Enrichment Analysis (GSEA).

r-gsl

Homepage:
Spack package:
Versions:
2.1-7.1, 2.1-6
Build Dependencies:
r, gsl
Link Dependencies:
gsl
Run Dependencies:
r
Description:
Wrapper for the Gnu Scientific Library. An R wrapper for some of the functionality of the Gnu Scientific Library.

r-gsodr

Homepage:
Spack package:
Versions:
3.1.4, 2.1.2, 2.1.1
Build Dependencies:
r, r-countrycode, r-curl, r-data-table, r-httr, r-r-utils, r-future-apply
Run Dependencies:
r, r-countrycode, r-curl, r-data-table, r-httr, r-r-utils, r-future-apply
Description:
A Global Surface Summary of the Day (GSOD) Weather Data Client for R. Provides automated downloading, parsing, cleaning, unit conversion and formatting of Global Surface Summary of the Day ('GSOD') weather data from the from the USA National Centers for Environmental Information ('NCEI'). Units are converted from from United States Customary System ('USCS') units to International System of Units ('SI'). Stations may be individually checked for number of missing days defined by the user, where stations with too many missing observations are omitted. Only stations with valid reported latitude and longitude values are permitted in the final data. Additional useful elements, saturation vapour pressure ('es'), actual vapour pressure ('ea') and relative humidity ('RH') are calculated from the original data using the improved August- Roche-Magnus approximation (Alduchov & Eskridge 1996) and included in the final data set. The resulting metadata include station identification information, country, state, latitude, longitude, elevation, weather observations and associated flags. For information on the 'GSOD' data from 'NCEI', please see the 'GSOD' 'readme.txt' file available from, <https://www1.ncdc.noaa.gov/pub/data/gsod/readme.txt>.

r-gss

Homepage:
Spack package:
Versions:
2.2-3, 2.2-2, 2.1-10, 2.1-7
Build Dependencies:
r
Run Dependencies:
r
Description:
General Smoothing Splines. A comprehensive package for structural multivariate function estimation using smoothing splines.

r-gstat

Homepage:
Spack package:
Versions:
2.0-8, 2.0-6, 2.0-3
Build Dependencies:
r, r-lattice, r-sp, r-zoo, r-spacetime, r-fnn
Run Dependencies:
r, r-lattice, r-sp, r-zoo, r-spacetime, r-fnn
Description:
Spatial and Spatio-Temporal Geostatistical Modelling, Predictionand Simulation. Variogram modelling; simple, ordinary and universal point or block (co)kriging; spatio-temporal kriging; sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions; supports sf and stars.

r-gsubfn

Homepage:
Spack package:
Versions:
0.7, 0.6-6
Build Dependencies:
r, r-proto
Run Dependencies:
r, r-proto
Description:
Utilities for Strings and Function Arguments. gsubfn is like gsub but can take a replacement function or certain other objects instead of the replacement string. Matches and back references are input to the replacement function and replaced by the function output. gsubfn can be used to split strings based on content rather than delimiters and for quasi-perl-style string interpolation. The package also has facilities for translating formulas to functions and allowing such formulas in function calls instead of functions. This can be used with R functions such as apply, sapply, lapply, optim, integrate, xyplot, Filter and any other function that expects another function as an input argument or functions like cat or sql calls that may involve strings where substitution is desirable.

r-gtable

Homepage:
Spack package:
Versions:
0.3.0, 0.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Arrange 'Grobs' in Tables. Tools to make it easier to work with "tables" of 'grobs'. The 'gtable' package defines a 'gtable' grob class that specifies a grid along with a list of grobs and their placement in the grid. Further the package makes it easy to manipulate and combine 'gtable' objects so that complex compositions can be build up sequentially.

r-gtools

Homepage:
Spack package:
Versions:
3.9.2, 3.8.2, 3.8.1, 3.5.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Various R Programming Tools. Functions to assist in R programming. Including: [1] assist in developing, updating, and maintaining R and R packages ('ask', 'checkRVersion', 'getDependencies', 'keywords', 'scat'); [2] calculate the logit and inverse logit transformations ('logit', 'inv.logit'); [3] test if a value is missing, empty or contains only NA and NULL values ('invalid'); [4] manipulate R's .Last function ('addLast'); [5] define macros ('defmacro'); [6] detect odd and even integers ('odd', 'even'); [7] convert strings containing non-ASCII characters (like single quotes) to plain ASCII ('ASCIIfy'); [8] perform a binary search ('binsearch'); [9] sort strings containing both numeric and character components ('mixedsort'); [10] create a factor variable from the quantiles of a continuous variable ('quantcut'); [11] enumerate permutations and combinations ('combinations', 'permutation'); [12] calculate and convert between fold-change and log-ratio ('foldchange', 'logratio2foldchange', 'foldchange2logratio'); [13] calculate probabilities and generate random numbers from Dirichlet distributions ('rdirichlet', 'ddirichlet'); [14] apply a function over adjacent subsets of a vector ('running'); [15] modify the TCP_NODELAY ('de- Nagle') flag for socket objects; [16] efficient 'rbind' of data frames, even if the column names don't match ('smartbind'); [17] generate significance stars from p-values ('stars.pval'); [18] convert characters to/from ASCII codes;

r-gtrellis

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.16.1, 1.14.0, 1.12.1, 1.11.1, 1.8.0
Build Dependencies:
r, r-iranges, r-genomicranges, r-circlize, r-getoptlong
Run Dependencies:
r, r-iranges, r-genomicranges, r-circlize, r-getoptlong
Description:
Genome Level Trellis Layout. Genome level Trellis graph visualizes genomic data conditioned by genomic categories (e.g. chromosomes). For each genomic category, multiple dimensional data which are represented as tracks describe different features from different aspects. This package provides high flexibility to arrange genomic categories and to add self-defined graphics in the plot.

r-gviz

Homepage:
Spack package:
Versions:
1.38.3, 1.34.0, 1.28.3, 1.26.5, 1.24.0, 1.22.3, 1.20.0
Build Dependencies:
r, r-s4vectors, r-iranges, r-genomicranges, r-xvector, r-rtracklayer, r-lattice, r-rcolorbrewer, r-biomart, r-annotationdbi, r-biobase, r-genomicfeatures, r-ensembldb, r-bsgenome, r-biostrings, r-biovizbase, r-rsamtools, r-latticeextra, r-matrixstats, r-genomicalignments, r-genomeinfodb, r-biocgenerics, r-digest
Run Dependencies:
r, r-s4vectors, r-iranges, r-genomicranges, r-xvector, r-rtracklayer, r-lattice, r-rcolorbrewer, r-biomart, r-annotationdbi, r-biobase, r-genomicfeatures, r-ensembldb, r-bsgenome, r-biostrings, r-biovizbase, r-rsamtools, r-latticeextra, r-matrixstats, r-genomicalignments, r-genomeinfodb, r-biocgenerics, r-digest
Description:
Plotting data and annotation information along genomic coordinates. Genomic data analyses requires integrated visualization of known genomic information and new experimental data. Gviz uses the biomaRt and the rtracklayer packages to perform live annotation queries to Ensembl and UCSC and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.

r-gwmodel

Homepage:
Spack package:
Versions:
2.2-8, 2.2-2, 2.1-3, 2.1-1, 2.0-9
Build Dependencies:
r, r-maptools, r-robustbase, r-sp, r-rcpp, r-spatialreg, r-spacetime, r-spdep, r-fnn, r-rcpparmadillo, gmake
Run Dependencies:
r, r-maptools, r-robustbase, r-sp, r-rcpp, r-spatialreg, r-spacetime, r-spdep, r-fnn, r-rcpparmadillo
Description:
Geographically-Weighted Models. Techniques from a particular branch of spatial statistics,termed geographically-weighted (GW) models. GW models suit situations when data are not described well by some global model, but where there are spatial regions where a suitably localised calibration provides a better description. 'GWmodel' includes functions to calibrate: GW summary statistics (Brunsdon et al., 2002) <doi:10.1016/s0198-9715(01)00009-6>, GW principal components analysis (Harris et al., 2011) <doi:10.1080/13658816.2011.554838>, GW discriminant analysis (Brunsdon et al., 2007) <doi:10.1111/j.1538-4632.2007.00709.x> and various forms of GW regression (Brunsdon et al., 1996) <doi:10.1111/j.1538-4632.1996.tb00936.x>; some of which are provided in basic and robust (outlier resistant) forms.

r-hardhat

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
r, r-glue, r-rlang, r-tibble, r-vctrs
Run Dependencies:
r, r-glue, r-rlang, r-tibble, r-vctrs
Description:
Construct Modeling Packages. Building modeling packages is hard. A large amount of effort generally goes into providing an implementation for a new method that is efficient, fast, and correct, but often less emphasis is put on the user interface. A good interface requires specialized knowledge about S3 methods and formulas, which the average package developer might not have. The goal of 'hardhat' is to reduce the burden around building new modeling packages by providing functionality for preprocessing, predicting, and validating input.

r-haven

Homepage:
Spack package:
Versions:
2.4.3, 2.3.1, 2.1.1, 2.1.0, 1.1.0
Build Dependencies:
r, r-forcats, r-hms, r-readr, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-cpp11, gmake, zlib, r-rcpp
Link Dependencies:
zlib
Run Dependencies:
r, r-forcats, r-hms, r-readr, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-cpp11, r-rcpp
Description:
Import and Export 'SPSS', 'Stata' and 'SAS' Files. Import foreign statistical formats into R via the embedded 'ReadStat' C library, <https://github.com/WizardMac/ReadStat>.

r-hdf5array

Homepage:
Spack package:
Versions:
1.22.1, 1.18.0, 1.12.3, 1.10.1, 1.8.1, 1.6.0, 1.4.8
Build Dependencies:
r, r-delayedarray, r-rhdf5, r-matrix, r-rhdf5filters, r-biocgenerics, r-s4vectors, r-iranges, r-rhdf5lib, gmake
Run Dependencies:
r, r-delayedarray, r-rhdf5, r-matrix, r-rhdf5filters, r-biocgenerics, r-s4vectors, r-iranges, r-rhdf5lib
Description:
HDF5 backend for DelayedArray objects. Implements the HDF5Array and TENxMatrix classes, 2 convenient and memory-efficient array-like containers for on-disk representation of HDF5 datasets. HDF5Array is for datasets that use the conventional (i.e. dense) HDF5 representation. TENxMatrix is for datasets that use the HDF5-based sparse matrix representation from 10x Genomics (e.g. the 1.3 Million Brain Cell Dataset). Both containers being DelayedArray extensions, they support all operations supported by DelayedArray objects. These operations can be either delayed or block-processed.

r-hdf5r

Homepage:
Spack package:
Versions:
1.3.5, 1.3.3, 1.2.0
Build Dependencies:
r, r-r6, r-bit64, hdf5, pkgconfig
Link Dependencies:
hdf5
Run Dependencies:
r, r-r6, r-bit64
Description:
Interface to the 'HDF5' Binary Data Format. 'HDF5' is a data model, library and file format for storing and managing large amounts of data. This package provides a nearly feature complete, object oriented wrapper for the 'HDF5' API <https://support.hdfgroup.org/HDF5/doc/RM/RM_H5Front.html> using R6 classes. Additionally, functionality is added so that 'HDF5' objects behave very similar to their corresponding R counterparts.

r-hdrcde

Homepage:
Spack package:
Versions:
3.4
Build Dependencies:
r, r-locfit, r-ash, r-ks, r-kernsmooth, r-ggplot2, r-rcolorbrewer
Run Dependencies:
r, r-locfit, r-ash, r-ks, r-kernsmooth, r-ggplot2, r-rcolorbrewer
Description:
Highest Density Regions and Conditional Density Estimation. Computation of highest density regions in one and two dimensions, kernel estimation of univariate density functions conditional on one covariate,and multimodal regression.

r-here

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
r, r-rprojroot
Run Dependencies:
r, r-rprojroot
Description:
A Simpler Way to Find Your Files. Constructs paths to your project's files. Declare the relative path of a file within your project with 'i_am()'. Use the 'here()' function as a drop-in replacement for 'file.path()', it will always locate the files relative to your project root.

r-hexbin

Homepage:
Spack package:
Versions:
1.28.2, 1.27.3, 1.27.2, 1.27.1
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Hexagonal Binning Routines. Binning and plotting functions for hexagonal bins. Now uses and relies on grid graphics and formal (S4) classes and methods.

r-hh

Homepage:
Spack package:
Versions:
3.1-47, 3.1-43, 3.1-40
Build Dependencies:
r, r-lattice, r-latticeextra, r-multcomp, r-gridextra, r-reshape2, r-leaps, r-vcd, r-colorspace, r-rcolorbrewer, r-shiny, r-hmisc, r-abind, r-rmpfr
Run Dependencies:
r, r-lattice, r-latticeextra, r-multcomp, r-gridextra, r-reshape2, r-leaps, r-vcd, r-colorspace, r-rcolorbrewer, r-shiny, r-hmisc, r-abind, r-rmpfr
Description:
Statistical Analysis and Data Display: Heiberger and Holland. Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.

r-highr

Homepage:
Spack package:
Versions:
0.9, 0.8, 0.7, 0.6
Build Dependencies:
r, r-xfun
Run Dependencies:
r, r-xfun
Description:
Syntax Highlighting for R Source Code. Provides syntax highlighting for R source code. Currently it supports LaTeX and HTML output. Source code of other languages is supported via Andre Simon's highlight package.

r-hmisc

Homepage:
Spack package:
Versions:
4.6-0, 4.4-2, 4.4-0, 4.2-0, 4.1-1
Build Dependencies:
r, r-lattice, r-survival, r-formula, r-ggplot2, r-latticeextra, r-cluster, r-rpart, r-nnet, r-foreign, r-gtable, r-gridextra, r-data-table, r-htmltable, r-viridis, r-htmltools, r-base64enc, r-acepack
Run Dependencies:
r, r-lattice, r-survival, r-formula, r-ggplot2, r-latticeextra, r-cluster, r-rpart, r-nnet, r-foreign, r-gtable, r-gridextra, r-data-table, r-htmltable, r-viridis, r-htmltools, r-base64enc, r-acepack
Description:
Harrell Miscellaneous. Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, and recoding variables.

r-hms

Homepage:
Spack package:
Versions:
1.1.1, 1.0.0, 0.5.0, 0.3
Build Dependencies:
r, r-ellipsis, r-lifecycle, r-pkgconfig, r-rlang, r-vctrs
Run Dependencies:
r, r-ellipsis, r-lifecycle, r-pkgconfig, r-rlang, r-vctrs
Description:
Pretty Time of Day. Implements an S3 class for storing and formatting time-of-day values, based on the 'difftime' class.

r-hoardr

Homepage:
Spack package:
Versions:
0.5.2
Build Dependencies:
r, r-r6, r-rappdirs, r-digest
Run Dependencies:
r, r-r6, r-rappdirs, r-digest
Description:
Manage Cached Files. Suite of tools for managing cached files, targeting use in other R packages. Uses 'rappdirs' for cross-platform paths. Provides utilities to manage cache directories, including targeting files by path or by key; cached directories can be compressed and uncompressed easily to save disk space.

r-htmltable

Homepage:
Spack package:
Versions:
2.4.0, 2.1.0, 1.13.1, 1.11.2, 1.9
Build Dependencies:
r, r-stringr, r-knitr, r-magrittr, r-checkmate, r-htmlwidgets, r-htmltools, r-rstudioapi
Run Dependencies:
r, r-stringr, r-knitr, r-magrittr, r-checkmate, r-htmlwidgets, r-htmltools, r-rstudioapi
Description:
Advanced Tables for Markdown/HTML. Tables with state-of-the-art layout elements such as row spanners, column spanners, table spanners, zebra striping, and more. While allowing advanced layout, the underlying css- structure is simple in order to maximize compatibility with word processors such as 'MS Word' or 'LibreOffice'. The package also contains a few text formatting functions that help outputting text compatible with HTML/'LaTeX'.

r-htmltools

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1.1, 0.5.1, 0.3.6, 0.3.5
Build Dependencies:
r, r-digest, r-base64enc, r-rlang, r-fastmap, r-rcpp
Run Dependencies:
r, r-digest, r-base64enc, r-rlang, r-fastmap, r-rcpp
Description:
Tools for HTML. Tools for HTML generation and output.

r-htmlwidgets

Homepage:
Spack package:
Versions:
1.5.4, 1.5.3, 1.3, 0.9, 0.8, 0.6
Build Dependencies:
r, r-htmltools, r-jsonlite, r-yaml
Run Dependencies:
r, r-htmltools, r-jsonlite, r-yaml
Description:
HTML Widgets for R. A framework for creating HTML widgets that render in various contexts including the R console, 'R Markdown' documents, and 'Shiny' web applications.

r-httpcode

Homepage:
Spack package:
Versions:
0.3.0, 0.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
'HTTP' Status Code Helper. Find and explain the meaning of 'HTTP' status codes. Functions included for searching for codes by full or partial number, by message, and get appropriate dog and cat images for many status codes.

r-httpuv

Homepage:
Spack package:
Versions:
1.6.5, 1.5.5, 1.5.1, 1.3.5, 1.3.3
Build Dependencies:
r, r-rcpp, r-r6, r-promises, r-later, gmake, zip, r-bh
Link Dependencies:
zip
Run Dependencies:
r, r-rcpp, r-r6, r-promises, r-later, r-bh
Description:
HTTP and WebSocket Server Library. Provides low-level socket and protocol support for handling HTTP and WebSocket requests directly from within R. It is primarily intended as a building block for other packages, rather than making it particularly easy to create complete web applications using httpuv alone. httpuv is built on top of the libuv and http-parser C libraries, both of which were developed by Joyent, Inc. (See LICENSE file for libuv and http-parser license information.)

r-httr

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.4.0, 1.3.1, 1.2.1, 1.1.0
Build Dependencies:
r, r-curl, r-jsonlite, r-mime, r-openssl, r-r6
Run Dependencies:
r, r-curl, r-jsonlite, r-mime, r-openssl, r-r6
Description:
Tools for Working with URLs and HTTP. Useful tools for working with HTTP organised by HTTP verbs (GET(), POST(), etc). Configuration functions make it easy to control additional request components (authenticate(), add_headers() and so on).

r-hwriter

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
r
Run Dependencies:
r
Description:
HTML Writer - Outputs R objects in HTML format. Easy-to-use and versatile functions to output R objects in HTML format.

r-hypergraph

Homepage:
Spack package:
Versions:
1.66.0, 1.62.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0, 1.48.0
Build Dependencies:
r, r-graph
Run Dependencies:
r, r-graph
Description:
A package providing hypergraph data structures. A package that implements some simple capabilities for representing and manipulating hypergraphs.

r-ica

Homepage:
Spack package:
Versions:
1.0-2, 1.0-1, 1.0-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Independent Component Analysis. Independent Component Analysis (ICA) using various algorithms: FastICA, Information-Maximization (Infomax), and Joint Approximate Diagonalization of Eigenmatrices (JADE).

r-ids

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
r, r-openssl, r-uuid
Run Dependencies:
r, r-openssl, r-uuid
Description:
Generate Random Identifiers. Generate random or human readable and pronounceable identifiers.

r-igraph

Homepage:
Spack package:
Versions:
1.2.11, 1.2.6, 1.2.4.1, 1.2.4, 1.1.2, 1.0.1
Build Dependencies:
r, r-magrittr, r-matrix, r-pkgconfig, gmp, libxml2, glpk, r-irlba
Link Dependencies:
gmp, libxml2, glpk
Run Dependencies:
r, r-magrittr, r-matrix, r-pkgconfig, r-irlba
Description:
Network Analysis and Visualization. Routines for simple graphs and network analysis. It can handle large graphs very well and provides functions for generating random and regular graphs, graph visualization, centrality methods and much more.

r-illumina450probevariants-db

Homepage:
Spack package:
Versions:
1.30.0, 1.26.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Annotation Package combining variant data from 1000 Genomes Project for Illumina HumanMethylation450 Bead Chip probes. Includes details on variants for each probe on the 450k bead chip for each of the four populations (Asian, American, African and European).

r-illuminahumanmethylation450kanno-ilmn12-hg19

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
r, r-minfi
Run Dependencies:
r, r-minfi
Description:
Annotation for Illumina's 450k methylation arrays. Manifests and annotation for Illumina's 450k array data.

r-illuminahumanmethylation450kmanifest

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
r, r-minfi
Run Dependencies:
r, r-minfi
Description:
Annotation for Illumina's 450k methylation arrays.

r-illuminahumanmethylationepicanno-ilm10b4-hg19

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
r, r-minfi
Run Dependencies:
r, r-minfi
Description:
Annotation for Illumina's EPIC methylation arrays.

r-illuminahumanmethylationepicmanifest

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
r, r-minfi
Run Dependencies:
r, r-minfi
Description:
Manifest for Illumina's EPIC methylation arrays.

r-illuminaio

Homepage:
Spack package:
Versions:
0.36.0, 0.32.0, 0.26.0, 0.24.0, 0.22.0, 0.20.0, 0.18.0
Build Dependencies:
r, r-base64
Run Dependencies:
r, r-base64
Description:
Parsing Illumina Microarray Output Files. Tools for parsing Illumina's microarray output files, including IDAT.

r-imager

Homepage:
Spack package:
Versions:
0.42.11, 0.42.10, 0.42.3, 0.41.2
Build Dependencies:
r, r-magrittr, r-rcpp, r-stringr, r-png, r-jpeg, r-readbitmap, r-purrr, r-downloader, r-igraph, fftw, libtiff, r-cairo, r-plyr
Link Dependencies:
r, fftw, libtiff
Run Dependencies:
r, r-magrittr, r-rcpp, r-stringr, r-png, r-jpeg, r-readbitmap, r-purrr, r-downloader, r-igraph, r-cairo, r-plyr
Description:
Image Processing Library Based on 'CImg'. Fast image processing for images in up to 4 dimensions (two spatial dimensions, one time/depth dimension, one colour dimension). Provides most traditional image processing tools (filtering, morphology, transformations, etc.) as well as various functions for easily analysing image data using R. The package wraps 'CImg', <https://cimg.eu/>, a simple, modern C++ library for image processing.

r-impute

Homepage:
Spack package:
Versions:
1.68.0, 1.64.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0, 1.50.1
Build Dependencies:
r
Run Dependencies:
r
Description:
impute: Imputation for microarray data. Imputation for microarray data (currently KNN only)

r-influencer

Homepage:
Spack package:
Versions:
0.1.0.1, 0.1.0
Build Dependencies:
r, r-igraph, r-matrix
Run Dependencies:
r, r-igraph, r-matrix
Description:
Software Tools to Quantify Structural Importance of Nodes in a Network. Provides functionality to compute various node centrality measures on networks. Included are functions to compute betweenness centrality (by utilizing Madduri and Bader's SNAP library), implementations of Burt's constraint and effective network size (ENS) metrics, Borgatti's algorithm to identify key players, and Valente's bridging metric. On Unix systems, the betweenness, Key Players, and bridging implementations are parallelized with OpenMP, which may run faster on systems which have OpenMP configured.

r-ini

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Read and Write '.ini' Files. Parse simple '.ini' configuration files to an structured list. Users can manipulate this resulting list with lapply() functions. This same structured list can be used to write back to file after modifications.

r-inline

Homepage:
Spack package:
Versions:
0.3.19, 0.3.17, 0.3.15, 0.3.14
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions to Inline C, C++, Fortran Function Calls from R. Functionality to dynamically define R functions and S4 methods with inlined C, C++ or Fortran code supporting .C and .Call calling conventions.

r-insight

Homepage:
Spack package:
Versions:
0.16.0, 0.15.0, 0.14.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Easy Access to Model Information for Various Model Objects. A tool to provide an easy, intuitive and consistent access to information contained in various R models, like model formulas, model terms, information about random effects, data that was used to fit the model or data from response variables. 'insight' mainly revolves around two types of functions: Functions that find (the names of) information, starting with 'find_', and functions that get the underlying data, starting with 'get_'. The package has a consistent syntax and works with many different model objects, where otherwise functions to access these information are missing.

r-interactivedisplaybase

Homepage:
Spack package:
Versions:
1.32.0, 1.28.0, 1.22.0, 1.20.0, 1.18.0, 1.16.0, 1.14.0
Build Dependencies:
r, r-biocgenerics, r-shiny, r-dt
Run Dependencies:
r, r-biocgenerics, r-shiny, r-dt
Description:
Base package for enabling powerful shiny web displays of Bioconductor objects. The interactiveDisplayBase package contains the the basic methods needed to generate interactive Shiny based display methods for Bioconductor objects.

r-intervals

Homepage:
Spack package:
Versions:
0.15.2, 0.15.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for working with and comparing sets of points and intervals.

r-inum

Homepage:
Spack package:
Versions:
1.0-4, 1.0-1
Build Dependencies:
r, r-libcoin
Run Dependencies:
r, r-libcoin
Description:
Interval and Enum-Type Representation of Vectors. Enum-type representation of vectors and representation of intervals, including a method of coercing variables in data frames.

r-ipred

Homepage:
Spack package:
Versions:
0.9-12, 0.9-9, 0.9-8, 0.9-5
Build Dependencies:
r, r-rpart, r-mass, r-survival, r-nnet, r-class, r-prodlim
Run Dependencies:
r, r-rpart, r-mass, r-survival, r-nnet, r-class, r-prodlim
Description:
Improved Predictors. Improved predictive models by indirect classification and bagging for classification, regression and survival problems as well as resampling based estimators of prediction error.

r-iranges

Homepage:
Spack package:
Versions:
2.28.0, 2.24.1, 2.22.2, 2.18.3, 2.16.0, 2.14.12, 2.12.0, 2.10.5
Build Dependencies:
r, r-biocgenerics, r-s4vectors
Run Dependencies:
r, r-biocgenerics, r-s4vectors
Description:
Foundation of integer range manipulation in Bioconductor. Provides efficient low-level and highly reusable S4 classes for storing, manipulating and aggregating over annotated ranges of integers. Implements an algebra of range operations, including efficient algorithms for finding overlaps and nearest neighbors. Defines efficient list-like classes for storing, transforming and aggregating large grouped data, i.e., collections of atomic vectors and DataFrames.

r-irdisplay

Homepage:
Spack package:
Versions:
1.1, 0.7.0, 0.4.4
Build Dependencies:
r, r-repr
Run Dependencies:
r, r-repr
Description:
'Jupyter' Display Machinery. An interface to the rich display capabilities of 'Jupyter' front-ends (e.g. 'Jupyter Notebook') <https://jupyter.org>. Designed to be used from a running 'IRkernel' session <https://irkernel.github.io>.

r-irkernel

Homepage:
Spack package:
Versions:
1.3, 1.2, 0.7
Build Dependencies:
r, r-repr, r-evaluate, r-irdisplay, r-pbdzmq, r-crayon, r-jsonlite, r-uuid, r-digest, r-devtools
Run Dependencies:
r, r-repr, r-evaluate, r-irdisplay, r-pbdzmq, r-crayon, r-jsonlite, r-uuid, r-digest, py-jupyter, r-devtools
Description:
Native R Kernel for the 'Jupyter Notebook'. The R kernel for the 'Jupyter' environment executes R code which the front-end ('Jupyter Notebook' or other front-ends) submits to the kernel via the network.

r-irlba

Homepage:
Spack package:
Versions:
2.3.5, 2.3.3, 2.3.2, 2.1.2, 2.0.0
Build Dependencies:
r, r-matrix
Run Dependencies:
r, r-matrix
Description:
Fast Truncated Singular Value Decomposition and Principal Components Analysis for Large Dense and Sparse Matrices. Fast and memory efficient methods for truncated singular value decomposition and principal components analysis of large sparse and dense matrices.

r-isdparser

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0
Build Dependencies:
r, r-tibble, r-data-table, r-lubridate
Run Dependencies:
r, r-tibble, r-data-table, r-lubridate
Description:
Parse 'NOAA' Integrated Surface Data Files. Tools for parsing 'NOAA' Integrated Surface Data ('ISD') files, described at <https://www.ncdc.noaa.gov/isd>. Data includes for example, wind speed and direction, temperature, cloud data, sea level pressure, and more. Includes data from approximately 35,000 stations worldwide, though best coverage is in North America/Europe/Australia. Data is stored as variable length ASCII character strings, with most fields optional. Included are tools for parsing entire files, or individual lines of data.

r-islr

Homepage:
Spack package:
Versions:
1.4, 1.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Data for an Introduction to Statistical Learning with Applications in R. We provide the collection of data-sets used in the book 'An Introduction to Statistical Learning with Applications in R'.

r-iso

Homepage:
Spack package:
Versions:
0.0-18.1, 0.0-18, 0.0-17
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions to Perform Isotonic Regression. Linear order and unimodal order (univariate) isotonic regression; bivariate isotonic regression with linear order on both variables.

r-isoband

Homepage:
Spack package:
Versions:
0.2.5, 0.2.3
Build Dependencies:
r, r-testthat
Run Dependencies:
r, r-testthat
Description:
Generate Isolines and Isobands from Regularly Spaced Elevation Grids. A fast C++ implementation to generate contour lines (isolines) and contour polygons (isobands) from regularly spaced grids containing elevation data.

r-isva

Homepage:
Spack package:
Versions:
1.9
Build Dependencies:
r, r-qvalue, r-fastica, r-jade
Run Dependencies:
r, r-qvalue, r-fastica, r-jade
Description:
Independent Surrogate Variable Analysis. Independent Surrogate Variable Analysis is an algorithm for feature selection in the presence of potential confounding factors (see Teschendorff AE et al 2011, <doi:10.1093/bioinformatics/btr171>).

r-iterators

Homepage:
Spack package:
Versions:
1.0.13, 1.0.12, 1.0.9, 1.0.8
Build Dependencies:
r
Run Dependencies:
r
Description:
Provides Iterator Construct. Support for iterators, which allow a programmer to traverse through all the elements of a vector, list, or other collection of data.

r-jade

Homepage:
Spack package:
Versions:
2.0-3
Build Dependencies:
r, r-clue
Run Dependencies:
r, r-clue
Description:
Blind Source Separation Methods Based on Joint Diagonalization and Some BSS Performance Criteria. Cardoso's JADE algorithm as well as his functions for joint diagonalization are ported to R. Also several other blind source separation (BSS) methods, like AMUSE and SOBI, and some criteria for performance evaluation of BSS algorithms, are given. The package is described in Miettinen, Nordhausen and Taskinen (2017) <doi:10.18637/jss.v076.i02>.

r-janitor

Homepage:
Spack package:
Versions:
2.1.0, 1.2.0, 1.1.1, 0.3.0
Build Dependencies:
r, r-dplyr, r-lifecycle, r-lubridate, r-magrittr, r-purrr, r-rlang, r-stringi, r-stringr, r-snakecase, r-tidyselect, r-tidyr
Run Dependencies:
r, r-dplyr, r-lifecycle, r-lubridate, r-magrittr, r-purrr, r-rlang, r-stringi, r-stringr, r-snakecase, r-tidyselect, r-tidyr
Description:
Simple Tools for Examining and Cleaning Dirty Data. The main janitor functions can: perfectly format data.frame column names; provide quick one- and two-variable tabulations (i.e., frequency tables and crosstabs); and isolate duplicate records. Other janitor functions nicely format the tabulation results. These tabulate-and-report functions approximate popular features of SPSS and Microsoft Excel. This package follows the principles of the "tidyverse" and works well with the pipe function %>%. janitor was built with beginning-to-intermediate R users in mind and is optimized for user-friendliness. Advanced R users can already do everything covered here, but with janitor they can do it faster and save their thinking for the fun stuff.

r-jaspar2018

Homepage:
Spack package:
Versions:
1.1.0, 1.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Data package for JASPAR 2018. Data package for JASPAR 2018. To search this databases, please use the package TFBSTools (>= 1.15.6).

r-jomo

Homepage:
Spack package:
Versions:
2.7-2, 2.6-9, 2.6-7, 2.6-2
Build Dependencies:
r, r-lme4, r-survival, r-mass, r-ordinal
Run Dependencies:
r, r-lme4, r-survival, r-mass, r-ordinal
Description:
Multilevel Joint Modelling Multiple Imputation. Similarly to Schafer's package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation (Carpenter and Kenward, 2013) <doi:10.1002/9781119942283>. Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.

r-jpeg

Homepage:
Spack package:
Versions:
0.1-9, 0.1-8.1, 0.1-8
Build Dependencies:
r, jpeg
Link Dependencies:
jpeg
Run Dependencies:
r
Description:
Read and write JPEG images. This package provides an easy and simple way to read, write and display bitmap images stored in the JPEG format. It can read and write both files and in-memory raw vectors.

r-jquerylib

Homepage:
Spack package:
Versions:
0.1.4
Build Dependencies:
r, r-htmltools
Run Dependencies:
r, r-htmltools
Description:
Obtain 'jQuery' as an HTML Dependency Object. Obtain any major version of 'jQuery' (<https://code.jquery.com/>) and use it in any webpage generated by 'htmltools' (e.g. 'shiny', 'htmlwidgets', and 'rmarkdown'). Most R users don't need to use this package directly, but other R packages (e.g. 'shiny', 'rmarkdown', etc.) depend on this package to avoid bundling redundant copies of 'jQuery'.

r-jsonify

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
r, r-rcpp, r-rapidjsonr
Run Dependencies:
r, r-rcpp, r-rapidjsonr
Description:
Convert Between 'R' Objects and Javascript Object Notation (JSON). Conversions between 'R' objects and Javascript Object Notation (JSON) using the 'rapidjsonr' library <https://CRAN.R-project.org/package=rapidjsonr>.

r-jsonlite

Homepage:
Spack package:
Versions:
1.8.0, 1.7.3, 1.7.2, 1.6.1, 1.6, 1.5, 1.2, 1.0, 0.9.21
Build Dependencies:
r
Run Dependencies:
r
Description:
A Simple and Robust JSON Parser and Generator for R. A fast JSON parser and generator optimized for statistical data and the web. Started out as a fork of 'RJSONIO', but has been completely rewritten in recent versions. The package offers flexible, robust, high performance tools for working with JSON in R and is particularly powerful for building pipelines and interacting with a web API. The implementation is based on the mapping described in the vignette (Ooms, 2014). In addition to converting JSON data from/to R objects, 'jsonlite' contains functions to stream, validate, and prettify JSON data. The unit tests included with the package verify that all edge cases are encoded and decoded consistently for use with dynamic data in systems and applications.

r-kegg-db

Homepage:
Spack package:
Versions:
3.2.4, 3.2.3
Build Dependencies:
r, r-annotationdbi
Run Dependencies:
r, r-annotationdbi
Description:
A set of annotation maps for KEGG. A set of annotation maps for KEGG assembled using data from KEGG.

r-kegggraph

Homepage:
Spack package:
Versions:
1.54.0, 1.50.0, 1.44.0, 1.42.0, 1.40.0, 1.38.1, 1.38.0
Build Dependencies:
r, r-xml, r-graph, r-rcurl, r-rgraphviz
Run Dependencies:
r, r-xml, r-graph, r-rcurl, r-rgraphviz
Description:
KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor. KEGGGraph is an interface between KEGG pathway and graph object as well as a collection of tools to analyze, dissect and visualize these graphs. It parses the regularly updated KGML (KEGG XML) files into graph models maintaining all essential pathway attributes. The package offers functionalities including parsing, graph operation, visualization and etc.

r-keggrest

Homepage:
Spack package:
Versions:
1.34.0, 1.30.1, 1.24.1, 1.22.0, 1.20.2, 1.18.1, 1.16.1
Build Dependencies:
r, r-httr, r-png, r-biostrings
Run Dependencies:
r, r-httr, r-png, r-biostrings
Description:
Client-side REST access to KEGG. A package that provides a client interface to the KEGG REST server. Based on KEGGSOAP by J. Zhang, R. Gentleman, and Marc Carlson, and KEGG (python package) by Aurelien Mazurie.

r-kernlab

Homepage:
Spack package:
Versions:
0.9-29, 0.9-27, 0.9-26, 0.9-25
Build Dependencies:
r
Run Dependencies:
r
Description:
Kernel-Based Machine Learning Lab. Kernel-based machine learning methods for classification, regression, clustering, novelty detection, quantile regression and dimensionality reduction. Among other methods 'kernlab' includes Support Vector Machines, Spectral Clustering, Kernel PCA, Gaussian Processes and a QP solver.

r-kernsmooth

Homepage:
Spack package:
Versions:
2.23-20, 2.23-18, 2.23-15
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Kernel Smoothing Supporting Wand & Jones (1995). Functions for kernel smoothing (and density estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995) "Kernel Smoothing".

r-kknn

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
r, r-igraph, r-matrix
Run Dependencies:
r, r-igraph, r-matrix
Description:
Weighted k-Nearest Neighbors. Weighted k-Nearest Neighbors for Classification, Regression and Clustering.

r-klar

Homepage:
Spack package:
Versions:
0.6-15
Build Dependencies:
r, r-mass, r-combinat, r-questionr
Run Dependencies:
r, r-mass, r-combinat, r-questionr
Description:
Classification and Visualization. Miscellaneous functions for classification and visualization, e.g. regularized discriminant analysis, sknn() kernel-density naive Bayes, an interface to 'svmlight' and stepclass() wrapper variable selection for supervised classification, partimat() visualization of classification rules and shardsplot() of cluster results as well as kmodes() clustering for categorical data, corclust() variable clustering, variable extraction from different variable clustering models and weight of evidence preprocessing.

r-knitr

Homepage:
Spack package:
Versions:
1.37, 1.33, 1.30, 1.28, 1.24, 1.23, 1.17, 1.14
Build Dependencies:
r, r-evaluate, r-highr, r-stringr, r-yaml, r-xfun, pandoc, py-rst2pdf, r-digest, r-formatr, r-markdown
Run Dependencies:
r, r-evaluate, r-highr, r-stringr, r-yaml, r-xfun, py-rst2pdf, r-digest, r-formatr, r-markdown
Description:
A General-Purpose Package for Dynamic Report Generation in R. Provides a general-purpose tool for dynamic report generation in R using Literate Programming techniques.

r-kpmt

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
r, r-matrixstats
Run Dependencies:
r, r-matrixstats
Description:
Known Population Median Test. Functions that implement the known population median test.

r-ks

Homepage:
Spack package:
Versions:
1.13.3, 1.11.7, 1.11.5, 1.11.4, 1.11.2
Build Dependencies:
r, r-fnn, r-kernlab, r-kernsmooth, r-matrix, r-mclust, r-mgcv, r-multicool, r-mvtnorm, r-plot3d, r-pracma
Run Dependencies:
r, r-fnn, r-kernlab, r-kernsmooth, r-matrix, r-mclust, r-mgcv, r-multicool, r-mvtnorm, r-plot3d, r-pracma
Description:
Kernel Smoothing. Kernel smoothers for univariate and multivariate data, including densities, density derivatives, cumulative distributions, clustering, classification, density ridges, significant modal regions, and two-sample hypothesis tests. Chacon & Duong (2018) <doi:10.1201/9780429485572>.

r-ksamples

Homepage:
Spack package:
Versions:
1.2-9
Build Dependencies:
r, r-suppdists
Run Dependencies:
r, r-suppdists
Description:
K-Sample Rank Tests and their Combinations. Compares k samples using the Anderson-Darling test, Kruskal-Wallis type tests with different rank score criteria, Steel's multiple comparison test, and the Jonckheere- Terpstra (JT) test. It computes asymptotic, simulated or (limited) exact P-values, all valid under randomization, with or without ties, or conditionally under random sampling from populations, given the observed tie pattern. Except for Steel's test and the JT test it also combines these tests across several blocks of samples. Also analyzed are 2 x t contingency tables and their blocked combinations using the Kruskal- Wallis criterion. Steel's test is inverted to provide simultaneous confidence bounds for shift parameters. A plotting function compares tail probabilities obtained under asymptotic approximation with those obtained via simulation or exact calculations.

r-labeling

Homepage:
Spack package:
Versions:
0.4.2, 0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Axis Labeling. Provides a range of axis labeling algorithms.

r-labelled

Homepage:
Spack package:
Versions:
2.9.0, 2.7.0
Build Dependencies:
r, r-haven, r-dplyr, r-lifecycle, r-rlang, r-vctrs, r-stringr, r-tidyr, r-pillar
Run Dependencies:
r, r-haven, r-dplyr, r-lifecycle, r-rlang, r-vctrs, r-stringr, r-tidyr, r-pillar
Description:
Manipulating Labelled Data. Work with labelled data imported from 'SPSS' or 'Stata' with 'haven' or 'foreign'. This package provides useful functions to deal with "haven_labelled" and "haven_labelled_spss" classes introduced by 'haven' package.

r-lambda-r

Homepage:
Spack package:
Versions:
1.2.4, 1.2.3, 1.2
Build Dependencies:
r, r-formatr
Run Dependencies:
r, r-formatr
Description:
Modeling Data with Functional Programming. A language extension to efficiently write functional programs in R. Syntax extensions include multi-part function definitions, pattern matching, guard statements, built-in (optional) type safety.

r-laplacesdemon

Homepage:
Spack package:
Versions:
16.1.6, 16.1.4, 16.1.1, 16.1.0, 16.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Complete Environment for Bayesian Inference. Provides a complete environment for Bayesian inference using a variety of different samplers (see ?LaplacesDemon for an overview). The README describes the history of the package development process.

r-lars

Homepage:
Spack package:
Versions:
1.2, 1.1, 0.9-8
Build Dependencies:
r
Run Dependencies:
r
Description:
Least Angle Regression, Lasso and Forward Stagewise. Efficient procedures for fitting an entire lasso sequence with the cost of a single least squares fit.

r-later

Homepage:
Spack package:
Versions:
1.3.0, 1.1.0.1, 0.8.0
Build Dependencies:
r, r-rcpp, r-rlang, r-bh
Run Dependencies:
r, r-rcpp, r-rlang, r-bh
Description:
Utilities for Scheduling Functions to Execute Later with Event Loops. Executes arbitrary R or C functions some time after the current time, after the R execution stack has emptied.

r-lattice

Homepage:
Spack package:
Versions:
0.20-45, 0.20-44, 0.20-41, 0.20-38, 0.20-35, 0.20-34
Build Dependencies:
r
Run Dependencies:
r
Description:
Trellis Graphics for R. A powerful and elegant high-level data visualization system inspired by Trellis graphics, with an emphasis on multivariate data. Lattice is sufficient for typical graphics needs, and is also flexible enough to handle most nonstandard requirements. See ?Lattice for an introduction.

r-latticeextra

Homepage:
Spack package:
Versions:
0.6-29, 0.6-28
Build Dependencies:
r, r-lattice, r-png, r-jpeg, r-rcolorbrewer
Run Dependencies:
r, r-lattice, r-png, r-jpeg, r-rcolorbrewer
Description:
Extra Graphical Utilities Based on Lattice. Building on the infrastructure provided by the lattice package, this package provides several new high-level functions and methods, as well as additional utilities such as panel and axis annotation functions.

r-lava

Homepage:
Spack package:
Versions:
1.6.10, 1.6.8.1, 1.6.6, 1.6.4, 1.4.7
Build Dependencies:
r, r-future-apply, r-progressr, r-numderiv, r-survival, r-squarem
Run Dependencies:
r, r-future-apply, r-progressr, r-numderiv, r-survival, r-squarem
Description:
Latent Variable Models. A general implementation of Structural Equation Models with latent variables (MLE, 2SLS, and composite likelihood estimators) with both continuous, censored, and ordinal outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>). Mixture latent variable models and non-linear latent variable models (Holst and Budtz-Joergensen (2019) <doi:10.1093/biostatistics/kxy082>). The package also provides methods for graph exploration (d-separation, back-door criterion), simulation of general non-linear latent variable models, and estimation of influence functions for a broad range of statistical models.

r-lavaan

Homepage:
Spack package:
Versions:
0.6-10, 0.6-9, 0.6-8
Build Dependencies:
r, r-mass, r-mnormt, r-pbivnorm, r-numderiv
Run Dependencies:
r, r-mass, r-mnormt, r-pbivnorm, r-numderiv
Description:
Latent Variable Analysis. Fit a variety of latent variable models, including confirmatory factor analysis, structural equation modeling and latent growth curve models.

r-lazyeval

Homepage:
Spack package:
Versions:
0.2.2, 0.2.1, 0.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Lazy (Non-Standard) Evaluation. An alternative approach to non-standard evaluation using formulas. Provides a full implementation of LISP style 'quasiquotation', making it easier to generate code with other code.

r-ldheatmap

Homepage:
Spack package:
Versions:
1.0-4, 0.99-7
Build Dependencies:
r, r-genetics, r-snpstats, r-rcpp
Run Dependencies:
r, r-genetics, r-snpstats, r-rcpp
Description:
Graphical Display of Pairwise Linkage Disequilibria Between SNPs. Produces a graphical display, as a heat map, of measures of pairwise linkage disequilibria between single nucleotide polymorphisms (SNPs). Users may optionally include the physical locations or genetic map distances of each SNP on the plot. The methods are described in Shin et al. (2006) <doi:10.18637/jss.v016.c03>. Users should note that the imported package 'snpStats' and the suggested packages 'rtracklayer', 'GenomicRanges', 'GenomInfoDb' and 'IRanges' are all BioConductor packages <https://bioconductor.org>.

r-leafem

Homepage:
Spack package:
Versions:
0.1.6, 0.1.3
Build Dependencies:
r, r-base64enc, r-geojsonsf, r-htmltools, r-htmlwidgets, r-leaflet, r-raster, r-sf, r-png
Run Dependencies:
r, r-base64enc, r-geojsonsf, r-htmltools, r-htmlwidgets, r-leaflet, r-raster, r-sf, r-png
Description:
'leaflet' Extensions for 'mapview'. Provides extensions for packages 'leaflet' & 'mapdeck', many of which are used by package 'mapview'. Focus is on functionality readily available in Geographic Information Systems such as 'Quantum GIS'. Includes functions to display coordinates of mouse pointer position, query image values via mouse pointer and zoom-to-layer buttons. Additionally, provides a feature type agnostic function to add points, lines, polygons to a map.

r-leaflet

Homepage:
Spack package:
Versions:
2.0.4.1, 2.0.2, 2.0.1, 1.0.1
Build Dependencies:
r, r-base64enc, r-crosstalk, r-htmlwidgets, r-htmltools, r-magrittr, r-markdown, r-png, r-rcolorbrewer, r-raster, r-scales, r-sp, r-viridis, r-leaflet-providers
Run Dependencies:
r, r-base64enc, r-crosstalk, r-htmlwidgets, r-htmltools, r-magrittr, r-markdown, r-png, r-rcolorbrewer, r-raster, r-scales, r-sp, r-viridis, r-leaflet-providers
Description:
Create Interactive Web Maps with the JavaScript 'Leaflet' Library. Create and customize interactive maps using the 'Leaflet' JavaScript library and the 'htmlwidgets' package. These maps can be used directly from the R console, from 'RStudio', in Shiny apps and R Markdown documents.

r-leaflet-providers

Homepage:
Spack package:
Versions:
1.9.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Leaflet Providers. Contains third-party map tile provider information from 'Leaflet.js', <https://github.com/leaflet-extras/leaflet- providers>, to be used with the 'leaflet' R package. Additionally, 'leaflet.providers' enables users to retrieve up-to-date provider information between package updates.

r-leafpop

Homepage:
Spack package:
Versions:
0.1.0, 0.0.6
Build Dependencies:
r, r-base64enc, r-brew, r-htmltools, r-htmlwidgets, r-sf, r-svglite, r-uuid
Run Dependencies:
r, r-base64enc, r-brew, r-htmltools, r-htmlwidgets, r-sf, r-svglite, r-uuid
Description:
Include Tables, Images and Graphs in Leaflet Pop-Ups. Creates 'HTML' strings to embed tables, images or graphs in pop-ups of interactive maps created with packages like 'leaflet' or 'mapview'. Handles local images located on the file system or via remote URL. Handles graphs created with 'lattice' or 'ggplot2' as well as interactive plots created with 'htmlwidgets'.

r-leaps

Homepage:
Spack package:
Versions:
3.1, 3.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Regression Subset Selection. Regression subset selection, including exhaustive search.

r-learnbayes

Homepage:
Spack package:
Versions:
2.15.1, 2.15
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Learning Bayesian Inference. LearnBayes contains a collection of functions helpful in learning the basic tenets of Bayesian statistical inference. It contains functions for summarizing basic one and two parameter posterior distributions and predictive distributions. It contains MCMC algorithms for summarizing posterior distributions defined by the user. It also contains functions for regression models, hierarchical models, Bayesian tests, and illustrations of Gibbs sampling.

r-leiden

Homepage:
Spack package:
Versions:
0.3.9, 0.3.6, 0.3.1
Build Dependencies:
r, r-reticulate, r-matrix, r-igraph
Run Dependencies:
r, r-reticulate, r-matrix, r-igraph
Description:
R Implementation of Leiden Clustering Algorithm. Implements the 'Python leidenalg' module to be called in R. Enables clustering using the leiden algorithm for partition a graph into communities. See the 'Python' repository for more details: <https://github.com/vtraag/leidenalg> Traag et al (2018) From Louvain to Leiden: guaranteeing well-connected communities. <arXiv:1810.08473>.

r-lfe

Homepage:
Spack package:
Versions:
2.8-7.1, 2.8-6, 2.8-5, 2.8-4
Build Dependencies:
r, r-matrix, r-formula, r-xtable, r-sandwich
Run Dependencies:
r, r-matrix, r-formula, r-xtable, r-sandwich
Description:
Linear Group Fixed Effects. Transforms away factors with many levels prior to doing an OLS. Useful for estimating linear models with multiple group fixed effects, and for estimating linear models which uses factors with many levels as pure control variables. See Gaure (2013) <doi:10.1016/j.csda.2013.03.024> Includes support for instrumental variables, conditional F statistics for weak instruments, robust and multi-way clustered standard errors, as well as limited mobility bias correction (Gaure 2014 <doi:10.1002/sta4.68>). WARNING: This package is NOT under active development anymore, no further improvements are to be expected, and the package is at risk of being removed from CRAN.

r-lhs

Homepage:
Spack package:
Versions:
1.1.3, 1.1.1, 1.0.1, 1.0, 0.16
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Latin Hypercube Samples. Provides a number of methods for creating and augmenting Latin Hypercube Samples.

r-libcoin

Homepage:
Spack package:
Versions:
1.0-9, 1.0-6, 1.0-4
Build Dependencies:
r, r-mvtnorm
Run Dependencies:
r, r-mvtnorm
Description:
Linear Test Statistics for Permutation Inference. Basic infrastructure for linear test statistics and permutation inference in the framework of Strasser and Weber (1999) <https://epub.wu.ac.at/102/>. This package must not be used by end-users. CRAN package 'coin' implements all user interfaces and is ready to be used by anyone.

r-lifecycle

Homepage:
Spack package:
Versions:
1.0.1, 0.2.0
Build Dependencies:
r, r-glue, r-rlang
Run Dependencies:
r, r-glue, r-rlang
Description:
Manage the Life Cycle of your Package Functions. Manage the life cycle of your exported functions with shared conventions, documentation badges, and non-invasive deprecation warnings. The 'lifecycle' package defines four development stages (experimental, maturing, stable, and questioning) and three deprecation stages (soft-deprecated, deprecated, and defunct). It makes it easy to insert badges corresponding to these stages in your documentation. Usage of deprecated functions are signalled with increasing levels of non-invasive verbosity.

r-limma

Homepage:
Spack package:
Versions:
3.50.0, 3.46.0, 3.40.6, 3.38.3, 3.36.5, 3.34.9, 3.32.10
Build Dependencies:
r
Run Dependencies:
r
Description:
Linear Models for Microarray Data. Data analysis, linear models and differential expression for microarray data.

r-limsolve

Homepage:
Spack package:
Versions:
1.5.6
Build Dependencies:
r, r-quadprog, r-lpsolve, r-mass
Run Dependencies:
r, r-quadprog, r-lpsolve, r-mass
Description:
Solving Linear Inverse Models. Functions that (1) find the minimum/maximum of a linear or quadratic function: min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(a_i*x_i) subject to equality constraints Ex=f and/or inequality constraints Gx>=h, (2) sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b, (3) solve a linear system Ax=B for the unknown x. It includes banded and tridiagonal linear systems.

r-listenv

Homepage:
Spack package:
Versions:
0.8.0, 0.7.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Environments Behaving (Almost) as Lists. List environments are environments that have list-like properties. For instance, the elements of a list environment are ordered and can be accessed and iterated over using index subsetting.

r-lme4

Homepage:
Spack package:
Versions:
1.1-27.1, 1.1-27, 1.1-26, 1.1-21, 1.1-20, 1.1-12
Build Dependencies:
r, r-matrix, r-mass, r-lattice, r-boot, r-nlme, r-minqa, r-nloptr, r-statmod, r-rcpp, r-rcppeigen
Run Dependencies:
r, r-matrix, r-mass, r-lattice, r-boot, r-nlme, r-minqa, r-nloptr, r-statmod, r-rcpp, r-rcppeigen
Description:
Linear Mixed-Effects Models using 'Eigen' and S4. Fit linear and generalized linear mixed-effects models. The models and their components are represented using S4 classes and methods. The core computational algorithms are implemented using the 'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue".

r-lmertest

Homepage:
Spack package:
Versions:
3.1-3
Build Dependencies:
r, r-lme4, r-numderiv, r-mass, r-ggplot2
Run Dependencies:
r, r-lme4, r-numderiv, r-mass, r-ggplot2
Description:
Tests in Linear Mixed Effects Models. Provides p-values in type I, II or III anova and summary tables for lmer model fits (cf. lme4) via Satterthwaite's degrees of freedom method. A Kenward-Roger method is also available via the pbkrtest package. Model selection methods include step, drop1 and anova-like tables for random effects (ranova). Methods for Least-Square means (LS-means) and tests of linear contrasts of fixed effects are also available.

r-lmtest

Homepage:
Spack package:
Versions:
0.9-39, 0.9-38, 0.9-37, 0.9-36, 0.9-34
Build Dependencies:
r, r-zoo
Run Dependencies:
r, r-zoo
Description:
Testing Linear Regression Models. A collection of tests, data sets, and examples for diagnostic checking in linear regression models. Furthermore, some generic tools for inference in parametric models are provided.

r-lobstr

Homepage:
Spack package:
Versions:
1.1.1, 1.0.1, 1.0.0
Build Dependencies:
r, r-crayon, r-rcpp, r-rlang
Run Dependencies:
r, r-crayon, r-rcpp, r-rlang
Description:
Visualize R Data Structures with Trees. A set of tools for inspecting and understanding R data structures inspired by str(). Includes ast() for visualizing abstract syntax trees, ref() for showing shared references, cst() for showing call stack trees, and obj_size() for computing object sizes.

r-locfit

Homepage:
Spack package:
Versions:
1.5-9.4, 1.5-9.1
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Local regression, likelihood and density estimation. Local regression, likelihood and density estimation methods as described in the 1999 book by Loader.

r-log4r

Homepage:
Spack package:
Versions:
0.4.2, 0.3.2, 0.3.0, 0.2
Build Dependencies:
r
Run Dependencies:
r
Description:
A Fast and Lightweight Logging System for R, Based on 'log4j'. logr4 provides an object-oriented logging system that uses an API roughly equivalent to log4j and its related variants.

r-loo

Homepage:
Spack package:
Versions:
2.4.1, 2.3.1, 2.1.0
Build Dependencies:
r, r-checkmate, r-matrixstats, pandoc
Link Dependencies:
pandoc
Run Dependencies:
r, r-checkmate, r-matrixstats
Description:
Efficient Leave-One-Out Cross-Validation and WAIC for BayesianModels. Efficient approximate leave-one-out cross-validation (LOO) for Bayesian models fit using Markov chain Monte Carlo, as described in Vehtari, Gelman, and Gabry (2017) <doi:10.1007/s11222-016-9696-4>. The approximation uses Pareto smoothed importance sampling (PSIS), a new procedure for regularizing importance weights. As a byproduct of the calculations, we also obtain approximate standard errors for estimated predictive errors and for the comparison of predictive errors between models. The package also provides methods for using stacking and other model weighting techniques to average Bayesian predictive distributions.

r-lpsolve

Homepage:
Spack package:
Versions:
5.6.15, 5.6.13.2, 5.6.13.1, 5.6.13
Build Dependencies:
r
Run Dependencies:
r
Description:
Interface to 'Lp_solve' v. 5.5 to Solve Linear/Integer Programs. Lp_solve is freely available (under LGPL 2) software for solving linear, integer and mixed integer programs. In this implementation we supply a "wrapper" function in C and some R functions that solve general linear/integer problems, assignment problems, and transportation problems. This version calls lp_solve

r-lpsolveapi

Homepage:
Spack package:
Versions:
5.5.2.0-17.7
Build Dependencies:
r
Run Dependencies:
r
Description:
R Interface to 'lp_solve' Version 5.5.2.0. The lpSolveAPI package provides an R interface to 'lp_solve', a Mixed Integer Linear Programming (MILP) solver with support for pure linear, (mixed) integer/binary, semi-continuous and special ordered sets (SOS) models.

r-lsei

Homepage:
Spack package:
Versions:
1.3-0, 1.2-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Solving Least Squares or Quadratic Programming Problems under Equality/Inequality Constraints. It contains functions that solve least squares linear regression problems under linear equality/inequality constraints. Functions for solving quadratic programming problems are also available, which transform such problems into least squares ones first. It is developed based on the 'Fortran' program of Lawson and Hanson (1974, 1995), which is public domain and available at <http://www.netlib.org/lawson-hanson>.

r-lubridate

Homepage:
Spack package:
Versions:
1.8.0, 1.7.9.2, 1.7.4, 1.7.3, 1.7.1, 1.5.6
Build Dependencies:
r, r-generics, r-cpp11, r-rcpp, r-stringr
Run Dependencies:
r, r-generics, r-cpp11, r-rcpp, r-stringr
Description:
Make Dealing with Dates a Little Easier. Functions to work with date- times and timespans: fast and user friendly parsing of date-time data, extraction and updating of components of a date-time (years, months, days, hours, minutes, and seconds), algebraic manipulation on date-time and timespan objects. The 'lubridate' package has a consistent and memorable syntax that makes working with dates easy and fun.

r-lumi

Homepage:
Spack package:
Versions:
2.46.0, 2.42.0, 2.38.0
Build Dependencies:
r, r-biobase, r-affy, r-methylumi, r-genomicfeatures, r-genomicranges, r-annotate, r-lattice, r-mgcv, r-nleqslv, r-kernsmooth, r-preprocesscore, r-rsqlite, r-dbi, r-annotationdbi, r-mass
Run Dependencies:
r, r-biobase, r-affy, r-methylumi, r-genomicfeatures, r-genomicranges, r-annotate, r-lattice, r-mgcv, r-nleqslv, r-kernsmooth, r-preprocesscore, r-rsqlite, r-dbi, r-annotationdbi, r-mass
Description:
BeadArray Specific Methods for Illumina Methylation and Expression Microarrays. The lumi package provides an integrated solution for the Illumina microarray data analysis. It includes functions of Illumina BeadStudio (GenomeStudio) data input, quality control, BeadArray- specific variance stabilization, normalization and gene annotation at the probe level. It also includes the functions of processing Illumina methylation microarrays, especially Illumina Infinium methylation microarrays.

r-lwgeom

Homepage:
Spack package:
Versions:
0.2-8, 0.2-5
Build Dependencies:
r, r-rcpp, r-units, r-sf, geos, proj, sqlite
Link Dependencies:
geos, proj, sqlite
Run Dependencies:
r, r-rcpp, r-units, r-sf
Description:
Bindings to Selected 'liblwgeom' Functions for Simple Features. Access to selected functions found in 'liblwgeom' <https://github.com/postgis/postgis/tree/master/liblwgeom>, the light- weight geometry library used by 'PostGIS' <https://postgis.net/>.

r-magic

Homepage:
Spack package:
Versions:
1.5-9, 1.5-8, 1.5-6
Build Dependencies:
r, r-abind
Run Dependencies:
r, r-abind
Description:
Create and Investigate Magic Squares. A collection of efficient, vectorized algorithms for the creation and investigation of magic squares and hypercubes, including a variety of functions for the manipulation and analysis of arbitrarily dimensioned arrays. The package includes methods for creating normal magic squares of any order greater than 2. The ultimate intention is for the package to be a computerized embodiment all magic square knowledge, including direct numerical verification of properties of magic squares (such as recent results on the determinant of odd-ordered semimagic squares). Some antimagic functionality is included. The package also serves as a rebuttal to the often-heard comment "I thought R was just for statistics".

r-magick

Homepage:
Spack package:
Versions:
2.7.3, 2.6.0, 2.1
Build Dependencies:
r, r-rcpp, r-magrittr, r-curl, imagemagick
Link Dependencies:
imagemagick
Run Dependencies:
r, r-rcpp, r-magrittr, r-curl
Description:
Advanced Graphics and Image-Processing in R. Bindings to 'ImageMagick': the most comprehensive open-source image processing library available. Supports many common formats (png, jpeg, tiff, pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc). All operations are vectorized via the Magick++ STL meaning they operate either on a single frame or a series of frames for working with layers, collages, or animation. In RStudio images are automatically previewed when printed to the console, resulting in an interactive editing environment. The latest version of the package includes a native graphics device for creating in-memory graphics or drawing onto images using pixel coordinates.

r-magrittr

Homepage:
Spack package:
Versions:
2.0.2, 2.0.1, 1.5
Build Dependencies:
r
Run Dependencies:
r
Description:
A Forward-Pipe Operator for R. Provides a mechanism for chaining commands with a new forward-pipe operator, %>%. This operator will forward a value, or the result of an expression, into the next function call/expression. There is flexible support for the type of right-hand side expressions. For more information, see package vignette.

r-makecdfenv

Homepage:
Spack package:
Versions:
1.70.0, 1.66.0, 1.60.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0
Build Dependencies:
r, r-affyio, r-biobase, r-affy, r-zlibbioc
Run Dependencies:
r, r-affyio, r-biobase, r-affy, r-zlibbioc
Description:
CDF Environment Maker. This package has two functions. One reads a Affymetrix chip description file (CDF) and creates a hash table environment containing the location/probe set membership mapping. The other creates a package that automatically loads that environment.

r-maldiquant

Homepage:
Spack package:
Versions:
1.21, 1.19.3, 1.19.2, 1.16.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Quantitative Analysis of Mass Spectrometry Data. A complete analysis pipeline for matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) and other two-dimensional mass spectrometry data. In addition to commonly used plotting and processing methods it includes distinctive features, namely baseline subtraction methods such as morphological filters (TopHat) or the statistics-sensitive non-linear iterative peak-clipping algorithm (SNIP), peak alignment using warping functions, handling of replicated measurements as well as allowing spectra with different resolutions.

r-manipulatewidget

Homepage:
Spack package:
Versions:
0.11.1, 0.10.1, 0.10.0, 0.9.0, 0.8.0, 0.7.0, 0.6.0, 0.5.1, 0.5.0, 0.4.0
Build Dependencies:
r, r-shiny, r-miniui, r-htmltools, r-htmlwidgets, r-knitr, r-base64enc, r-codetools, r-webshot, r-shinyjs
Run Dependencies:
r, r-shiny, r-miniui, r-htmltools, r-htmlwidgets, r-knitr, r-base64enc, r-codetools, r-webshot, r-shinyjs
Description:
Add Even More Interactivity to Interactive Charts. Like package 'manipulate' does for static graphics, this package helps to easily add controls like sliders, pickers, checkboxes, etc. that can be used to modify the input data or the parameters of an interactive chart created with package 'htmlwidgets'.

r-mapplots

Homepage:
Spack package:
Versions:
1.5.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Data Visualisation on Maps. Create simple maps; add sub-plots like pie plots to a map or any other plot; format, plot and export gridded data. The package was developed for displaying fisheries data but most functions can be used for more generic data visualisation.

r-mapproj

Homepage:
Spack package:
Versions:
1.2.8, 1.2.7, 1.2.6, 1.2-5, 1.2-4
Build Dependencies:
r, r-maps
Run Dependencies:
r, r-maps
Description:
Map Projections. Converts latitude/longitude into projected coordinates.

r-maps

Homepage:
Spack package:
Versions:
3.4.0, 3.3.0, 3.2.0, 3.1.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Draw Geographical Maps. Display of maps. Projection code and larger maps are in separate packages ('mapproj' and 'mapdata').

r-maptools

Homepage:
Spack package:
Versions:
1.1-2, 1.0-2, 0.9-5, 0.9-4, 0.8-39
Build Dependencies:
r, r-sp, r-foreign, r-lattice
Run Dependencies:
r, r-sp, r-foreign, r-lattice
Description:
Tools for Handling Spatial Objects. Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHG shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.

r-mapview

Homepage:
Spack package:
Versions:
2.10.0, 2.9.0
Build Dependencies:
r, r-base64enc, r-htmltools, r-htmlwidgets, r-lattice, r-leafem, r-leaflet, r-leafpop, r-png, r-raster, r-satellite, r-scales, r-servr, r-sf, r-sp, r-webshot, gmake
Run Dependencies:
r, r-base64enc, r-htmltools, r-htmlwidgets, r-lattice, r-leafem, r-leaflet, r-leafpop, r-png, r-raster, r-satellite, r-scales, r-servr, r-sf, r-sp, r-webshot
Description:
Interactive Viewing of Spatial Data in R. Quickly and conveniently create interactive visualisations of spatial data with or without background maps. Attributes of displayed features are fully queryable via pop-up windows. Additional functionality includes methods to visualise true- and false-color raster images and bounding boxes.

r-markdown

Homepage:
Spack package:
Versions:
1.1, 1.0, 0.9, 0.8, 0.7.7
Build Dependencies:
r, r-mime, r-xfun
Run Dependencies:
r, r-mime, r-xfun
Description:
Render Markdown with the C Library 'Sundown'. Provides R bindings to the 'Sundown' 'Markdown' rendering library (https://github.com/vmg/sundown). 'Markdown' is a plain-text formatting syntax that can be converted to 'XHTML' or other formats. See https://en.wikipedia.org/wiki/Markdown for more information about 'Markdown'.

r-marray

Homepage:
Spack package:
Versions:
1.72.0, 1.68.0
Build Dependencies:
r, r-limma
Run Dependencies:
r, r-limma
Description:
Exploratory analysis for two-color spotted microarray data. Class definitions for two-color spotted microarray data. Fuctions for data input, diagnostic plots, normalization and quality checking.

r-mass

Homepage:
Spack package:
Versions:
7.3-55, 7.3-54, 7.3-53, 7.3-51.5, 7.3-51.4, 7.3-51.3, 7.3-47
Build Dependencies:
r
Run Dependencies:
r
Description:
Support Functions and Datasets for Venables and Ripley's MASS. Functions and datasets to support Venables and Ripley, "Modern Applied Statistics with S" (4th edition, 2002).

r-mathjaxr

Homepage:
Spack package:
Versions:
1.4-0, 1.0-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Using 'Mathjax' in Rd Files. Provides 'MathJax' and macros to enable its use within Rd files for rendering equations in the HTML help files.

r-matlab

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
r
Run Dependencies:
r
Description:
MATLAB emulation package. Emulate MATLAB code using R.

r-matr

Homepage:
Spack package:
Versions:
0.9.1, 0.9
Build Dependencies:
r, r-mgraster, r-biom-utils
Run Dependencies:
r, r-mgraster, r-biom-utils
Description:
Metagenomics Analysis Tools. Package matR (Metagenomics Analysis Tools for R) is an analysis client for the MG-RAST metagenome annotation engine, part of the US Department of Energy (DOE) Systems Biology Knowledge Base (KBase). Customized analysis and visualization tools securely access remote data and metadata within the popular open source R language and environment for statistical computing.

r-matrix

Homepage:
Spack package:
Versions:
1.4-0, 1.3-4, 1.3-3, 1.3-2, 1.2-17, 1.2-14, 1.2-11, 1.2-8, 1.2-6
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Sparse and Dense Matrix Classes and Methods. A rich hierarchy of matrix classes, including triangular, symmetric, and diagonal matrices, both dense and sparse and with pattern, logical and numeric entries. Numerous methods for and operations on these matrices, using 'LAPACK' and 'SuiteSparse' libraries.

r-matrixgenerics

Homepage:
Spack package:
Versions:
1.6.0, 1.2.1
Build Dependencies:
r, r-matrixstats
Run Dependencies:
r, r-matrixstats
Description:
S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects. S4 generic functions modeled after the 'matrixStats' API for alternative matrix implementations. Packages with alternative matrix implementation can depend on this package and implement the generic functions that are defined here for a useful set of row and column summary statistics. Other package developers can import this package and handle a different matrix implementations without worrying about incompatibilities.

r-matrixmodels

Homepage:
Spack package:
Versions:
0.5-0, 0.4-1
Build Dependencies:
r, r-matrix
Run Dependencies:
r, r-matrix
Description:
Modelling with Sparse and Dense Matrices. Modelling with sparse and dense 'Matrix' matrices, using modular prediction and response module classes.

r-matrixstats

Homepage:
Spack package:
Versions:
0.61.0, 0.58.0, 0.57.0, 0.55.0, 0.54.0, 0.52.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions that Apply to Rows and Columns of Matrices (and to Vectors). High-performing functions operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized. There are also optimized vector-based methods, e.g. binMeans(), madDiff() and weightedMedian().

r-mclust

Homepage:
Spack package:
Versions:
5.4.9, 5.4.7, 5.4.5, 5.4.4, 5.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Gaussian Mixture Modelling for Model-Based Clustering, Classification, and Density Estimation. Gaussian finite mixture models fitted via EM algorithm for model-based clustering, classification, and density estimation, including Bayesian regularization, dimension reduction for visualisation, and resampling-based inference.

r-mcmc

Homepage:
Spack package:
Versions:
0.9-7
Build Dependencies:
r
Run Dependencies:
r
Description:
Markov Chain Monte Carlo. Simulates continuous distributions of random vectors using Markov chain Monte Carlo (MCMC). Users specify the distribution by an R function that evaluates the log unnormalized density. Algorithms are random walk Metropolis algorithm (function metrop), simulated tempering (function temper), and morphometric random walk Metropolis (Johnson and Geyer, 2012, <doi:10.1214/12-AOS1048>, function morph.metrop), which achieves geometric ergodicity by change of variable.

r-mcmcglmm

Homepage:
Spack package:
Versions:
2.33, 2.32, 2.30, 2.29, 2.28, 2.25
Build Dependencies:
r, r-matrix, r-coda, r-ape, r-corpcor, r-tensora, r-cubature
Run Dependencies:
r, r-matrix, r-coda, r-ape, r-corpcor, r-tensora, r-cubature
Description:
MCMC Generalised Linear Mixed Models. Fits Multivariate Generalised Linear Mixed Models (and related models) using Markov chain Monte Carlo techniques (Hadfield 2010 J. Stat. Soft.).

r-mcmcpack

Homepage:
Spack package:
Versions:
1.6-0, 1.5-0
Build Dependencies:
r, r-coda, r-mass, r-lattice, r-mcmc, r-quantreg
Run Dependencies:
r, r-coda, r-mass, r-lattice, r-mcmc, r-quantreg
Description:
Markov Chain Monte Carlo (MCMC) Package. Contains functions to perform Bayesian inference using posterior simulation for a number of statistical models. Most simulation is done in compiled C++ written in the Scythe Statistical Library Version 1.0.3. All models return 'coda' mcmc objects that can then be summarized using the 'coda' package. Some useful utility functions such as density functions, pseudo-random number generators for statistical distributions, a general purpose Metropolis sampling algorithm, and tools for visualization are provided.

r-mco

Homepage:
Spack package:
Versions:
1.15.6, 1.0-15.1, 1.0-15
Build Dependencies:
r
Run Dependencies:
r
Description:
Multiple Criteria Optimization Algorithms and Related Functions. A collection of function to solve multiple criteria optimization problems using genetic algorithms (NSGA-II). Also included is a collection of test functions.

r-mda

Homepage:
Spack package:
Versions:
0.5-2, 0.4-10, 0.4-9
Build Dependencies:
r, r-class
Run Dependencies:
r, r-class
Description:
Mixture and Flexible Discriminant Analysis. Mixture and flexible discriminant analysis, multivariate adaptive regression splines (MARS), BRUTO.

r-memoise

Homepage:
Spack package:
Versions:
2.0.1, 1.1.0, 1.0.0
Build Dependencies:
r, r-rlang, r-cachem, r-digest
Run Dependencies:
r, r-rlang, r-cachem, r-digest
Description:
'Memoisation' of Functions. Cache the results of a function so that when you call it again with the same arguments it returns the pre-computed value.

r-memuse

Homepage:
Spack package:
Versions:
4.2-1, 4.1-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Memory Estimation Utilities. How much ram do you need to store a 100,000 by 100,000 matrix? How much ram is your current R session using? How much ram do you even have? Learn the scintillating answer to these and many more such questions with the 'memuse' package.

r-mergemaid

Homepage:
Spack package:
Versions:
2.56.0, 2.54.0, 2.52.0, 2.50.0, 2.48.0
Build Dependencies:
r, r-survival, r-biobase, r-mass
Run Dependencies:
r, r-survival, r-biobase, r-mass
Description:
Merge Maid. The functions in this R extension are intended for cross- study comparison of gene expression array data. Required from the user is gene expression matrices, their corresponding gene-id vectors and other useful information, and they could be 'list','matrix', or 'ExpressionSet'. The main function is 'mergeExprs' which transforms the input objects into data in the merged format, such that common genes in different datasets can be easily found. And the function 'intcor' calculate the correlation coefficients. Other functions use the output from 'modelOutcome' to graphically display the results and cross- validate associations of gene expression data with survival.

r-metap

Homepage:
Spack package:
Versions:
1.7, 1.4, 1.1
Build Dependencies:
r, r-lattice, r-rdpack, r-tfisher, r-mutoss, r-mathjaxr
Run Dependencies:
r, r-lattice, r-rdpack, r-tfisher, r-mutoss, r-mathjaxr
Description:
Meta-Analysis of Significance Values. The canonical way to perform meta- analysis involves using effect sizes. When they are not available this package provides a number of methods for meta-analysis of significance values including the methods of Edgington, Fisher, Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results; and a routine for graphical display.

r-methylumi

Homepage:
Spack package:
Versions:
2.40.1, 2.36.0, 2.32.0
Build Dependencies:
r, r-biobase, r-scales, r-reshape2, r-ggplot2, r-matrixstats, r-fdb-infiniummethylation-hg19, r-minfi, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-lattice, r-annotate, r-genefilter, r-annotationdbi, r-illuminaio, r-genomicfeatures
Run Dependencies:
r, r-biobase, r-scales, r-reshape2, r-ggplot2, r-matrixstats, r-fdb-infiniummethylation-hg19, r-minfi, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-lattice, r-annotate, r-genefilter, r-annotationdbi, r-illuminaio, r-genomicfeatures
Description:
Handle Illumina methylation data. This package provides classes for holding and manipulating Illumina methylation data. Based on eSet, it can contain MIAME information, sample information, feature information, and multiple matrices of data. An "intelligent" import function, methylumiR can read the Illumina text files and create a MethyLumiSet. methylumIDAT can directly read raw IDAT files from HumanMethylation27 and HumanMethylation450 microarrays. Normalization, background correction, and quality control features for GoldenGate, Infinium, and Infinium HD arrays are also included.

r-mgcv

Homepage:
Spack package:
Versions:
1.8-38, 1.8-33, 1.8-28, 1.8-27, 1.8-22, 1.8-21, 1.8-20, 1.8-19, 1.8-18, 1.8-17, 1.8-16, 1.8-13
Build Dependencies:
r, r-nlme, r-matrix
Run Dependencies:
r, r-nlme, r-matrix
Description:
Mixed GAM Computation Vehicle with Automatic Smoothness Estimation. Generalized additive (mixed) models, some of their extensions and other generalized ridge regression with multiple smoothing parameter estimation by (Restricted) Marginal Likelihood, Generalized Cross Validation and similar, or using iterated nested Laplace approximation for fully Bayesian inference. See Wood (2017) <doi:10.1201/9781315370279> for an overview. Includes a gam() function, a wide variety of smoothers, 'JAGS' support and distributions beyond the exponential family.

r-mgraster

Homepage:
Spack package:
Versions:
0.9
Build Dependencies:
r
Run Dependencies:
r
Description:
API Client for the MG-RAST Server of the US DOE KBase. Convenience Functions for R Language Access to the v.1 API of the MG-RAST Metagenome Annotation Server, part of the US Department of Energy (DOE) Systems Biology Knowledge Base (KBase).

r-mice

Homepage:
Spack package:
Versions:
3.14.0, 3.12.0, 3.6.0, 3.5.0, 3.0.0
Build Dependencies:
r, r-broom, r-dplyr, r-generics, r-lattice, r-rcpp, r-rlang, r-tidyr, r-withr, r-cpp11, r-mitml, r-nnet, r-rpart, r-survival, r-mass
Run Dependencies:
r, r-broom, r-dplyr, r-generics, r-lattice, r-rcpp, r-rlang, r-tidyr, r-withr, r-cpp11, r-mitml, r-nnet, r-rpart, r-survival, r-mass
Description:
Multivariate Imputation by Chained Equations. Multiple imputation using Fully Conditional Specification (FCS) implemented by the MICE algorithm as described in Van Buuren and Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. Each variable has its own imputation model. Built-in imputation models are provided for continuous data (predictive mean matching, normal), binary data (logistic regression), unordered categorical data (polytomous logistic regression) and ordered categorical data (proportional odds). MICE can also impute continuous two-level data (normal model, pan, second-level variables). Passive imputation can be used to maintain consistency between variables. Various diagnostic plots are available to inspect the quality of the imputations.

r-microbenchmark

Homepage:
Spack package:
Versions:
1.4.9, 1.4-7
Build Dependencies:
r
Run Dependencies:
r
Description:
Accurate Timing Functions. Provides infrastructure to accurately measure and compare the execution time of R expressions.

r-mime

Homepage:
Spack package:
Versions:
0.12, 0.11, 0.9, 0.7, 0.6, 0.5, 0.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Map Filenames to MIME Types. Guesses the MIME type from a filename extension using the data derived from /etc/mime.types in UNIX-type systems.

r-miniui

Homepage:
Spack package:
Versions:
0.1.1.1
Build Dependencies:
r, r-shiny, r-htmltools
Run Dependencies:
r, r-shiny, r-htmltools
Description:
Shiny UI Widgets for Small Screens. Provides UI widget and layout functions for writing Shiny apps that work well on small screens.

r-minqa

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
r, r-rcpp, gmake
Run Dependencies:
r, r-rcpp
Description:
Derivative-free optimization algorithms by quadratic approximation. Derivative-free optimization by quadratic approximation based on an interface to Fortran implementations by M. J. D. Powell.

r-misc3d

Homepage:
Spack package:
Versions:
0.9-1, 0.9-0, 0.8-4
Build Dependencies:
r
Run Dependencies:
r
Description:
Miscellaneous 3D Plots. A collection of miscellaneous 3d plots, including isosurfaces.

r-missmethyl

Homepage:
Spack package:
Versions:
1.28.0, 1.24.0
Build Dependencies:
r, r-illuminahumanmethylation450kanno-ilmn12-hg19, r-illuminahumanmethylationepicanno-ilm10b4-hg19, r-annotationdbi, r-biasedurn, r-biobase, r-biocgenerics, r-genomicranges, r-go-db, r-illuminahumanmethylation450kmanifest, r-illuminahumanmethylationepicmanifest, r-iranges, r-limma, r-methylumi, r-minfi, r-org-hs-eg-db, r-ruv, r-s4vectors, r-statmod, r-stringr, r-summarizedexperiment
Run Dependencies:
r, r-illuminahumanmethylation450kanno-ilmn12-hg19, r-illuminahumanmethylationepicanno-ilm10b4-hg19, r-annotationdbi, r-biasedurn, r-biobase, r-biocgenerics, r-genomicranges, r-go-db, r-illuminahumanmethylation450kmanifest, r-illuminahumanmethylationepicmanifest, r-iranges, r-limma, r-methylumi, r-minfi, r-org-hs-eg-db, r-ruv, r-s4vectors, r-statmod, r-stringr, r-summarizedexperiment
Description:
Analysing Illumina HumanMethylation BeadChip Data. Normalisation, testing for differential variability and differential methylation and gene set testing for data from Illumina's Infinium HumanMethylation arrays. The normalisation procedure is subset-quantile within-array normalisation (SWAN), which allows Infinium I and II type probes on a single array to be normalised together. The test for differential variability is based on an empirical Bayes version of Levene's test. Differential methylation testing is performed using RUV, which can adjust for systematic errors of unknown origin in high-dimensional data by using negative control probes. Gene ontology analysis is performed by taking into account the number of probes per gene on the array, as well as taking into account multi-gene associated probes.

r-mitml

Homepage:
Spack package:
Versions:
0.4-3, 0.3-7, 0.3-6, 0.3-5
Build Dependencies:
r, r-pan, r-jomo, r-haven
Run Dependencies:
r, r-pan, r-jomo, r-haven
Description:
Tools for Multiple Imputation in Multilevel Modeling. Provides tools for multiple imputation of missing data in multilevel modeling. Includes a user-friendly interface to the packages 'pan' and 'jomo', and several functions for visualization, data management and the analysis of multiply imputed data sets.

r-mitools

Homepage:
Spack package:
Versions:
2.4
Build Dependencies:
r, r-dbi
Run Dependencies:
r, r-dbi
Description:
Tools for Multiple Imputation of Missing Data. Tools to perform analyses and combine results from multiple-imputation datasets.

r-mixtools

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.4
Build Dependencies:
r, r-kernlab, r-mass, r-segmented, r-survival
Run Dependencies:
r, r-kernlab, r-mass, r-segmented, r-survival
Description:
Tools for Analyzing Finite Mixture Models. Analyzes finite mixture models for various parametric and semiparametric settings. This includes mixtures of parametric distributions (normal, multivariate normal, multinomial, gamma), various Reliability Mixture Models (RMMs), mixtures-of-regressions settings (linear regression, logistic regression, Poisson regression, linear regression with changepoints, predictor-dependent mixing proportions, random effects regressions, hierarchical mixtures-of-experts), and tools for selecting the number of components (bootstrapping the likelihood ratio test statistic, mixturegrams, and model selection criteria). Bayesian estimation of mixtures-of-linear-regressions models is available as well as a novel data depth method for obtaining credible bands. This package is based upon work supported by the National Science Foundation under Grant No. SES-0518772.

r-mlbench

Homepage:
Spack package:
Versions:
2.1-3, 2.1-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Machine Learning Benchmark Problems. A collection of artificial and real-world machine learning benchmark problems, including, e.g., several data sets from the UCI repository.

r-mlinterfaces

Homepage:
Spack package:
Versions:
1.74.0, 1.70.0, 1.64.1, 1.62.1, 1.60.1, 1.58.1, 1.56.0
Build Dependencies:
r, r-rcpp, r-biocgenerics, r-biobase, r-annotate, r-cluster, r-gdata, r-pls, r-sfsmisc, r-mass, r-rpart, r-genefilter, r-fpc, r-ggvis, r-shiny, r-gbm, r-rcolorbrewer, r-hwriter, r-threejs, r-mlbench, r-magrittr, r-rda
Run Dependencies:
r, r-rcpp, r-biocgenerics, r-biobase, r-annotate, r-cluster, r-gdata, r-pls, r-sfsmisc, r-mass, r-rpart, r-genefilter, r-fpc, r-ggvis, r-shiny, r-gbm, r-rcolorbrewer, r-hwriter, r-threejs, r-mlbench, r-magrittr, r-rda
Description:
Uniform interfaces to R machine learning procedures for data in Bioconductor containers. This package provides uniform interfaces to machine learning code for data in R and Bioconductor containers.

r-mlr

Homepage:
Spack package:
Versions:
2.19.0, 2.18.0, 2.15.0, 2.14.0, 2.13, 2.12.1, 2.12
Build Dependencies:
r, r-paramhelpers, r-backports, r-bbmisc, r-checkmate, r-data-table, r-ggplot2, r-parallelmap, r-stringi, r-survival, r-xml
Run Dependencies:
r, r-paramhelpers, r-backports, r-bbmisc, r-checkmate, r-data-table, r-ggplot2, r-parallelmap, r-stringi, r-survival, r-xml
Description:
Machine Learning in R. Interface to a large number of classification and regression techniques, including machine-readable parameter descriptions. There is also an experimental extension for survival analysis, clustering and general, example-specific cost-sensitive learning. Generic resampling, including cross-validation, bootstrapping and subsampling. Hyperparameter tuning with modern optimization techniques, for single- and multi-objective problems. Filter and wrapper methods for feature selection. Extension of basic learners with additional operations common in machine learning, also allowing for easy nested resampling. Most operations can be parallelized.

r-mlrmbo

Homepage:
Spack package:
Versions:
1.1.5, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
r, r-mlr, r-paramhelpers, r-smoof, r-backports, r-bbmisc, r-checkmate, r-data-table, r-lhs, r-parallelmap
Run Dependencies:
r, r-mlr, r-paramhelpers, r-smoof, r-backports, r-bbmisc, r-checkmate, r-data-table, r-lhs, r-parallelmap
Description:
Bayesian Optimization and Model-Based Optimization of Expensive Black- Box Functions. Flexible and comprehensive R toolbox for model-based optimization ('MBO'), also known as Bayesian optimization. It is designed for both single- and multi-objective optimization with mixed continuous, categorical and conditional parameters. The machine learning toolbox 'mlr' provide dozens of regression learners to model the performance of the target algorithm with respect to the parameter settings. It provides many different infill criteria to guide the search process. Additional features include multi-point batch proposal, parallel execution as well as visualization and sophisticated logging mechanisms, which is especially useful for teaching and understanding of algorithm behavior. 'mlrMBO' is implemented in a modular fashion, such that single components can be easily replaced or adapted by the user for specific use cases.

r-mmwrweek

Homepage:
Spack package:
Versions:
0.1.3, 0.1.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Convert Dates to MMWR Day, Week, and Year. The first day of any MMWR week is Sunday. MMWR week numbering is sequential beginning with 1 and incrementing with each week to a maximum of 52 or 53. MMWR week #1 of an MMWR year is the first week of the year that has at least four days in the calendar year. This package provides functionality to convert Dates to MMWR day, week, and year and the reverse.

r-mnormt

Homepage:
Spack package:
Versions:
2.0.2, 1.5-5
Build Dependencies:
r, r-tmvnsim
Run Dependencies:
r, r-tmvnsim
Description:
The Multivariate Normal and t Distributions, and Their Truncated Versions. Functions are provided for computing the density and the distribution function of multivariate normal and "t" random variables, and for generating random vectors sampled from these distributions. Probabilities are computed via non-Monte Carlo methods; different routines are used in the case d=1, d=2, d>2, if d denotes the number of dimensions.

r-mockery

Homepage:
Spack package:
Versions:
0.4.2, 0.4.1, 0.4.0, 0.3.0
Build Dependencies:
r, r-testthat
Run Dependencies:
r, r-testthat
Description:
Mocking Library for R. The two main functionalities of this package are creating mock objects (functions) and selectively intercepting calls to a given function that originate in some other function. It can be used with any testing framework available for R. Mock objects can be injected with either this package's own stub() function or a similar with_mock() facility present in the 'testthat' package.

r-modelmetrics

Homepage:
Spack package:
Versions:
1.2.2.2, 1.2.2, 1.2.0, 1.1.0
Build Dependencies:
r, r-rcpp, r-data-table
Run Dependencies:
r, r-rcpp, r-data-table
Description:
Rapid Calculation of Model Metrics. Collection of metrics for evaluating models written in C++ using 'Rcpp'. Popular metrics include area under the curve, log loss, root mean square error, etc.

r-modelr

Homepage:
Spack package:
Versions:
0.1.8, 0.1.5, 0.1.4, 0.1.3, 0.1.1
Build Dependencies:
r, r-broom, r-magrittr, r-purrr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-vctrs, r-lazyeval, r-dplyr
Run Dependencies:
r, r-broom, r-magrittr, r-purrr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-vctrs, r-lazyeval, r-dplyr
Description:
Modelling Functions that Work with the Pipe. Functions for modelling that help you seamlessly integrate modelling into a pipeline of data manipulation and visualisation.

r-modeltools

Homepage:
Spack package:
Versions:
0.2-23, 0.2-22, 0.2-21
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools and Classes for Statistical Models. A collection of tools to deal with statistical models. The functionality is experimental and the user interface is likely to change in the future. The documentation is rather terse, but packages `coin' and `party' have some working examples. However, if you find the implemented ideas interesting we would be very interested in a discussion of this proposal. Contributions are more than welcome!

r-mpm

Homepage:
Spack package:
Versions:
1.0-22
Build Dependencies:
r, r-mass, r-kernsmooth
Run Dependencies:
r, r-mass, r-kernsmooth
Description:
Multivariate Projection Methods. Exploratory graphical analysis of multivariate data, specifically gene expression data with different projection methods: principal component analysis, correspondence analysis, spectral map analysis.

r-mscoreutils

Homepage:
Spack package:
Versions:
1.6.0
Build Dependencies:
r, r-s4vectors, r-mass, r-clue, r-rcpp
Run Dependencies:
r, r-s4vectors, r-mass, r-clue, r-rcpp
Description:
Core Utils for Mass Spectrometry Data. MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high- level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning), quantitative aggregation functions (median polish, robust summarisation, ...), missing data imputation, data normalisation (quantiles, vsn, ...) as well as misc helper functions, that are used across high-level data structure within the R for Mass Spectrometry packages.

r-msnbase

Homepage:
Spack package:
Versions:
2.20.4, 2.16.1, 2.10.1, 2.8.3, 2.6.4, 2.4.2, 2.2.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-mzr, r-s4vectors, r-protgenerics, r-mscoreutils, r-biocparallel, r-iranges, r-plyr, r-vsn, r-affy, r-impute, r-pcamethods, r-maldiquant, r-mzid, r-digest, r-lattice, r-ggplot2, r-xml, r-scales, r-mass, r-rcpp, r-preprocesscore
Run Dependencies:
r, r-biocgenerics, r-biobase, r-mzr, r-s4vectors, r-protgenerics, r-mscoreutils, r-biocparallel, r-iranges, r-plyr, r-vsn, r-affy, r-impute, r-pcamethods, r-maldiquant, r-mzid, r-digest, r-lattice, r-ggplot2, r-xml, r-scales, r-mass, r-rcpp, r-preprocesscore
Description:
Base Functions and Classes for Mass Spectrometry and Proteomics. MSnbase provides infrastructure for manipulation, processing and visualisation of mass spectrometry and proteomics data, ranging from raw to quantitative and annotated data.

r-multcomp

Homepage:
Spack package:
Versions:
1.4-18, 1.4-15, 1.4-10, 1.4-8, 1.4-6
Build Dependencies:
r, r-mvtnorm, r-survival, r-th-data, r-sandwich, r-codetools
Run Dependencies:
r, r-mvtnorm, r-survival, r-th-data, r-sandwich, r-codetools
Description:
Simultaneous Inference in General Parametric Models. Simultaneous tests and confidence intervals for general linear hypotheses in parametric models, including linear, generalized linear, linear mixed effects, and survival models. The package includes demos reproducing analyzes presented in the book "Multiple Comparisons Using R" (Bretz, Hothorn, Westfall, 2010, CRC Press).

r-multcompview

Homepage:
Spack package:
Versions:
0.1-8
Build Dependencies:
r
Run Dependencies:
r
Description:
Visualizations of Paired Comparisons. Convert a logical vector or a vector of p-values or a correlation, difference, or distance matrix into a display identifying the pairs for which the differences were not significantly different. Designed for use in conjunction with the output of functions like TukeyHSD, dist{stats}, simint, simtest, csimint, csimtest{multcomp}, friedmanmc, kruskalmc{pgirmess}.

r-multicool

Homepage:
Spack package:
Versions:
0.1-12, 0.1-11, 0.1-10, 0.1-9
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Permutations of multisets in cool-lex order. A set of tools to permute multisets without loops or hash tables and to generate integer partitions. The permutation functions are based on C code from Aaron Williams. Cool-lex order is similar to colexicographical order. The algorithm is described in Williams, A. (2009) <DOI:10.1145/1496770.1496877> Loopless Generation of Multiset Permutations by Prefix Shifts. Symposium on Discrete Algorithms, New York, United States. The permutation code is distributed without restrictions. The code for stable and efficient computation of multinomial coefficients comes from Dave Barber. The code can be download from <http://tamivox.org/dave/multinomial/code.html> and is distributed without conditions. The package also generates the integer partitions of a positive, non-zero integer n. The C++ code for this is based on Python code from Jerome Kelleher which can be found here <https://jeromekelleher.net/tag/integer-partitions.html>. The C++ code and Python code are distributed without conditions.

r-multitaper

Homepage:
Spack package:
Versions:
1.0-15, 1.0-14
Build Dependencies:
r
Run Dependencies:
r
Description:
Spectral Analysis Tools using the Multitaper Method. Implements multitaper spectral analysis using discrete prolate spheroidal sequences (Slepians) and sine tapers. It includes an adaptive weighted multitaper spectral estimate, a coherence estimate, Thomson's Harmonic F-test, and complex demodulation. The Slepians sequences are generated efficiently using a tridiagonal matrix solution, and jackknifed confidence intervals are available for most estimates. This package is an implementation of the method described in D.J. Thomson (1982) "Spectrum estimation and harmonic analysis" <doi:10.1109/PROC.1982.12433>.

r-multtest

Homepage:
Spack package:
Versions:
2.50.0, 2.46.0, 2.40.0, 2.38.0, 2.36.0, 2.34.0, 2.32.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-survival, r-mass
Run Dependencies:
r, r-biocgenerics, r-biobase, r-survival, r-mass
Description:
Resampling-based multiple hypothesis testing. Non-parametric bootstrap and permutation resampling-based multiple testing procedures (including empirical Bayes methods) for controlling the family-wise error rate (FWER), generalized family-wise error rate (gFWER), tail probability of the proportion of false positives (TPPFP), and false discovery rate (FDR). Several choices of bootstrap-based null distribution are implemented (centered, centered and scaled, quantile- transformed). Single-step and step-wise methods are available. Tests based on a variety of t- and F-statistics (including t-statistics based on regression parameters from linear and survival models as well as those based on correlation parameters) are included. When probing hypotheses with t-statistics, users may also select a potentially faster null distribution which is multivariate normal with mean zero and variance covariance matrix derived from the vector influence function. Results are reported in terms of adjusted p-values, confidence regions and test statistic cutoffs. The procedures are directly applicable to identifying differentially expressed genes in DNA microarray experiments.

r-munsell

Homepage:
Spack package:
Versions:
0.5.0, 0.4.3
Build Dependencies:
r, r-colorspace
Run Dependencies:
r, r-colorspace
Description:
Utilities for Using Munsell Colours. Provides easy access to, and manipulation of, the Munsell colours. Provides a mapping between Munsell's original notation (e.g. "5R 5/10") and hexadecimal strings suitable for use directly in R graphics. Also provides utilities to explore slices through the Munsell colour tree, to transform Munsell colours and display colour palettes.

r-mutoss

Homepage:
Spack package:
Versions:
0.1-12
Build Dependencies:
r, r-mvtnorm, r-plotrix, r-multtest, r-multcomp
Run Dependencies:
r, r-mvtnorm, r-plotrix, r-multtest, r-multcomp
Description:
Unified Multiple Testing Procedures. Designed to ease the application and comparison of multiple hypothesis testing procedures for FWER, gFWER, FDR and FDX. Methods are standardized and usable by the accompanying 'mutossGUI'.

r-mvtnorm

Homepage:
Spack package:
Versions:
1.1-3, 1.1-1, 1.0-11, 1.0-10, 1.0-6, 1.0-5
Build Dependencies:
r
Run Dependencies:
r
Description:
Multivariate Normal and t Distributions. Computes multivariate normal and t probabilities, quantiles, random deviates and densities.

r-mzid

Homepage:
Spack package:
Versions:
1.32.0, 1.28.0, 1.22.0, 1.20.1, 1.18.0, 1.16.0, 1.14.0
Build Dependencies:
r, r-xml, r-plyr, r-doparallel, r-foreach, r-iterators, r-protgenerics
Run Dependencies:
r, r-xml, r-plyr, r-doparallel, r-foreach, r-iterators, r-protgenerics
Description:
An mzIdentML parser for R. A parser for mzIdentML files implemented using the XML package. The parser tries to be general and able to handle all types of mzIdentML files with the drawback of having less 'pretty' output than a vendor specific parser. Please contact the maintainer with any problems and supply an mzIdentML file so the problems can be fixed quickly.

r-mzr

Homepage:
Spack package:
Versions:
2.28.0, 2.24.1, 2.18.1, 2.16.2, 2.14.0, 2.12.0, 2.10.0
Build Dependencies:
r, r-rcpp, r-biobase, r-biocgenerics, r-protgenerics, r-ncdf4, r-zlibbioc, r-rhdf5lib, gmake
Run Dependencies:
r, r-rcpp, r-biobase, r-biocgenerics, r-protgenerics, r-ncdf4, r-zlibbioc, r-rhdf5lib
Description:
parser for netCDF, mzXML, mzData and mzML and mzIdentML files (mass spectrometry data). mzR provides a unified API to the common file formats and parsers available for mass spectrometry data. It comes with a wrapper for the ISB random access parser for mass spectrometry mzXML, mzData and mzML files. The package contains the original code written by the ISB, and a subset of the proteowizard library for mzML and mzIdentML. The netCDF reading code has previously been used in XCMS.

r-nada

Homepage:
Spack package:
Versions:
1.6-1.1
Build Dependencies:
r, r-survival
Run Dependencies:
r, r-survival
Description:
Nondetects and Data Analysis for Environmental Data. Contains methods described by Dennis Helsel in his book "Nondetects And Data Analysis: Statistics for Censored Environmental Data".

r-nanotime

Homepage:
Spack package:
Versions:
0.3.5, 0.3.2, 0.2.4, 0.2.3, 0.2.0
Build Dependencies:
r, r-bit64, r-rcppcctz, r-zoo, r-rcpp, r-rcppdate
Run Dependencies:
r, r-bit64, r-rcppcctz, r-zoo, r-rcpp, r-rcppdate
Description:
Nanosecond-Resolution Time Support for R. Full 64-bit resolution date and time functionality with; nanosecond granularity is provided, with easy transition to and from; the standard 'POSIXct' type. Three additional classes offer interval,; period and duration functionality for nanosecond-resolution timestamps.

r-ncbit

Homepage:
Spack package:
Versions:
2013.03.29
Build Dependencies:
r
Run Dependencies:
r
Description:
Retrieve and build NBCI taxonomic data. Making NCBI taxonomic data locally available and searchable as an R object.

r-ncdf4

Homepage:
Spack package:
Versions:
1.19, 1.17, 1.16.1, 1.16, 1.15
Build Dependencies:
r, netcdf-c
Link Dependencies:
netcdf-c
Run Dependencies:
r
Description:
Interface to Unidata netCDF (Version 4 or Earlier) Format Data Files. Provides a high-level R interface to data files written using Unidata's netCDF library (version 4 or earlier), which are binary data files that are portable across platforms and include metadata information in addition to the data sets. Using this package, netCDF files (either version 4 or "classic" version 3) can be opened and data sets read in easily. It is also easy to create new netCDF dimensions, variables, and files, in either version 3 or 4 format, and manipulate existing netCDF files. This package replaces the former ncdf package, which only worked with netcdf version 3 files. For various reasons the names of the functions have had to be changed from the names in the ncdf package. The old ncdf package is still available at the URL given below, if you need to have backward compatibility. It should be possible to have both the ncdf and ncdf4 packages installed simultaneously without a problem. However, the ncdf package does not provide an interface for netcdf version 4 files.

r-network

Homepage:
Spack package:
Versions:
1.17.1, 1.16.1, 1.15, 1.14-377, 1.13.0
Build Dependencies:
r, r-tibble, r-magrittr, r-statnet-common
Run Dependencies:
r, r-tibble, r-magrittr, r-statnet-common
Description:
Classes for Relational Data. Tools to create and modify network objects. The network class can represent a range of relational data types, and supports arbitrary vertex/edge/graph attributes.

r-networkd3

Homepage:
Spack package:
Versions:
0.4, 0.3, 0.2.12
Build Dependencies:
r, r-htmlwidgets, r-igraph, r-magrittr
Run Dependencies:
r, r-htmlwidgets, r-igraph, r-magrittr
Description:
D3 JavaScript Network Graphs from R. Creates 'D3' 'JavaScript' network, tree, dendrogram, and Sankey graphs from 'R'.

r-neuralnet

Homepage:
Spack package:
Versions:
1.44.2
Build Dependencies:
r, r-mass, r-deriv
Run Dependencies:
r, r-mass, r-deriv
Description:
Training of Neural Networks. Training of neural networks using backpropagation, resilient backpropagation with (Riedmiller, 1994) or without weight backtracking (Riedmiller and Braun, 1993) or the modified globally convergent version by Anastasiadis et al. (2005). The package allows flexible settings through custom-choice of error and activation function. Furthermore, the calculation of generalized weights (Intrator O & Intrator N, 1993) is implemented.

r-nfactors

Homepage:
Spack package:
Versions:
2.4.1
Build Dependencies:
r, r-lattice, r-mass, r-psych
Run Dependencies:
r, r-lattice, r-mass, r-psych
Description:
Parallel Analysis and Other Non Graphical Solutions to the Cattell Scree Test. Indices, heuristics and strategies to help determine the number of factors/components to retain: 1. Acceleration factor (af with or without Parallel Analysis); 2. Optimal Coordinates (noc with or without Parallel Analysis); 3. Parallel analysis (components, factors and bootstrap); 4. lambda > mean(lambda) (Kaiser, CFA and related); 5. Cattell-Nelson- Gorsuch (CNG); 6. Zoski and Jurs multiple regression (b, t and p); 7. Zoski and Jurs standard error of the regression coeffcient (sescree); 8. Nelson R2; 9. Bartlett khi-2; 10. Anderson khi-2; 11. Lawley khi-2 and 12. Bentler-Yuan khi-2.

r-nimble

Homepage:
Spack package:
Versions:
0.12.1, 0.10.1, 0.9.1, 0.9.0
Build Dependencies:
r, r-igraph, r-coda, r-r6, gmake
Run Dependencies:
r, r-igraph, r-coda, r-r6
Description:
MCMC, Particle Filtering, and Programmable Hierarchical Modeling. A system for writing hierarchical statistical models largely compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models and do basic R-style math, and compiling both models and nimbleFunctions via custom-generated C++. 'NIMBLE' includes default methods for MCMC, Monte Carlo Expectation Maximization, and some other tools. The nimbleFunction system makes it easy to do things like implement new MCMC samplers from R, customize the assignment of samplers to different parts of a model from R, and compile the new samplers automatically via C++ alongside the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New distributions and functions can be added, including as calls to external compiled code. Although most people think of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing arbitrary other kinds of model- generic algorithms as well. A full User Manual is available at <https://r-nimble.org>.

r-nleqslv

Homepage:
Spack package:
Versions:
3.3.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Solve Systems of Nonlinear Equations. Solve a system of nonlinear equations using a Broyden or a Newton method with a choice of global strategies such as line search and trust region. There are options for using a numerical or user supplied Jacobian, for specifying a banded numerical Jacobian and for allowing a singular or ill-conditioned Jacobian.

r-nlme

Homepage:
Spack package:
Versions:
3.1-155, 3.1-153, 3.1-152, 3.1-151, 3.1-141, 3.1-139, 3.1-131, 3.1-130
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Linear and Nonlinear Mixed Effects Models. Fit and compare Gaussian linear and nonlinear mixed-effects models.

r-nloptr

Homepage:
Spack package:
Versions:
2.0.0, 1.2.2.3, 1.2.2.2, 1.2.1, 1.0.4
Build Dependencies:
r, r-testthat, nlopt
Link Dependencies:
r-testthat, nlopt
Run Dependencies:
r
Description:
R Interface to NLopt. Solve optimization problems using an R interface to NLopt. NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms. See <https://nlopt.readthedocs.io/en/latest/NLopt_Algorithms/> for more information on the available algorithms. Building from included sources requires 'CMake'. On Linux and 'macOS', if a suitable system build of NLopt (2.7.0 or later) is found, it is used; otherwise, it is built from included sources via 'CMake'. On Windows, NLopt is obtained through 'rwinlib' for 'R <= 4.1.x' or grabbed from the 'Rtools42 toolchain' for 'R >= 4.2.0'.

r-nmf

Homepage:
Spack package:
Versions:
0.23.0, 0.21.0
Build Dependencies:
r, r-pkgmaker, r-registry, r-rngtools, r-cluster, r-stringr, r-digest, r-gridbase, r-colorspace, r-rcolorbrewer, r-foreach, r-doparallel, r-ggplot2, r-reshape2, r-biocmanager, r-biobase
Run Dependencies:
r, r-pkgmaker, r-registry, r-rngtools, r-cluster, r-stringr, r-digest, r-gridbase, r-colorspace, r-rcolorbrewer, r-foreach, r-doparallel, r-ggplot2, r-reshape2, r-biocmanager, r-biobase
Description:
Algorithms and Framework for Nonnegative Matrix Factorization (NMF). Provides a framework to perform Non-negative Matrix Factorization (NMF). The package implements a set of already published algorithms and seeding methods, and provides a framework to test, develop and plug new/custom algorithms. Most of the built-in algorithms have been optimized in C++, and the main interface function provides an easy way of performing parallel computations on multicore machines.

r-nmof

Homepage:
Spack package:
Versions:
2.5-0, 2.2-2, 1.6-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Numerical Methods and Optimization in Finance. Functions, examples and data from the book "Numerical Methods and Optimization in Finance" by M. Gilli, D. Maringer and E. Schumann (2011), ISBN 978-0123756626. The package provides implementations of several optimisation heuristics, such as Differential Evolution, Genetic Algorithms and Threshold Accepting. There are also functions for the valuation of financial instruments, such as bonds and options, and functions that help with stochastic simulations.

r-nnet

Homepage:
Spack package:
Versions:
7.3-17, 7.3-14, 7.3-12
Build Dependencies:
r
Run Dependencies:
r
Description:
Feed-Forward Neural Networks and Multinomial Log-Linear Models. Software for feed-forward neural networks with a single hidden layer, and for multinomial log-linear models.

r-nnls

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
r
Run Dependencies:
r
Description:
The Lawson-Hanson algorithm for non-negative least squares (NNLS). An R interface to the Lawson-Hanson implementation of an algorithm for non- negative least squares (NNLS). Also allows the combination of non- negative and non-positive constraints.

r-nonnest2

Homepage:
Spack package:
Versions:
0.5-5
Build Dependencies:
r, r-compquadform, r-mvtnorm, r-lavaan, r-sandwich
Run Dependencies:
r, r-compquadform, r-mvtnorm, r-lavaan, r-sandwich
Description:
Tests of Non-Nested Models. Testing non-nested models via theory supplied by Vuong (1989) <doi:10.2307/1912557>. Includes tests of model distinguishability and of model fit that can be applied to both nested and non-nested models. Also includes functionality to obtain confidence intervals associated with AIC and BIC. This material is partially based on work supported by the National Science Foundation under Grant Number SES-1061334.

r-nor1mix

Homepage:
Spack package:
Versions:
1.3-0, 1.2-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Normal aka Gaussian (1-d) Mixture Models (S3 Classes and Methods). One dimensional Normal Mixture Models Classes, for, e.g., density estimation or clustering algorithms research and teaching; providing the widely used Marron-Wand densities. Efficient random number generation and graphics; now fitting to data by ML (Maximum Likelihood) or EM estimation.

r-nortest

Homepage:
Spack package:
Versions:
1.0-4
Build Dependencies:
r
Run Dependencies:
r
Description:
Tests for Normality. Five omnibus tests for testing the composite hypothesis of normality.

r-np

Homepage:
Spack package:
Versions:
0.60-11, 0.60-10, 0.60-9, 0.60-8, 0.60-2
Build Dependencies:
r, r-boot, r-cubature, r-quadprog, r-quantreg
Run Dependencies:
r, r-boot, r-cubature, r-quadprog, r-quantreg
Description:
Nonparametric Kernel Smoothing Methods for Mixed Data Types. This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).

r-npsurv

Homepage:
Spack package:
Versions:
0.5-0, 0.4-0
Build Dependencies:
r, r-lsei
Run Dependencies:
r, r-lsei
Description:
Nonparametric Survival Analysis. Non-parametric survival analysis of exact and interval-censored observations. The methods implemented are developed by Wang (2007) <doi:10.1111/j.1467-9868.2007.00583.x>, Wang (2008) <doi:10.1016/j.csda.2007.10.018>, Wang and Taylor (2013) <doi:10.1007/s11222-012-9341-9> and Wang and Fani (2018) <doi:10.1007/s11222-017-9724-z>.

r-numderiv

Homepage:
Spack package:
Versions:
2016.8-1.1, 2016.8-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Accurate Numerical Derivatives. Methods for calculating (usually) accurate numerical first and second order derivatives. Accurate calculations are done using 'Richardson"s' extrapolation or, when applicable, a complex step derivative is available. A simple difference method is also provided. Simple difference is (usually) less accurate but is much quicker than 'Richardson"s' extrapolation and provides a useful cross-check. Methods are provided for real scalar and vector valued functions.

r-oligoclasses

Homepage:
Spack package:
Versions:
1.56.0, 1.52.0, 1.46.0, 1.44.0, 1.42.0, 1.40.0, 1.38.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-iranges, r-genomicranges, r-summarizedexperiment, r-biostrings, r-affyio, r-foreach, r-biocmanager, r-s4vectors, r-rsqlite, r-dbi, r-ff, r-biocinstaller
Run Dependencies:
r, r-biocgenerics, r-biobase, r-iranges, r-genomicranges, r-summarizedexperiment, r-biostrings, r-affyio, r-foreach, r-biocmanager, r-s4vectors, r-rsqlite, r-dbi, r-ff, r-biocinstaller
Description:
Classes for high-throughput arrays supported by oligo and crlmm. This package contains class definitions, validity checks, and initialization methods for classes used by the oligo and crlmm packages.

r-openssl

Homepage:
Spack package:
Versions:
1.4.6, 1.4.5, 1.4.3, 1.4.1, 1.3, 0.9.7, 0.9.6, 0.9.4
Build Dependencies:
r, r-askpass, openssl
Link Dependencies:
openssl
Run Dependencies:
r, r-askpass
Description:
Toolkit for Encryption, Signatures and Certificates Based on OpenSSL. Bindings to OpenSSL libssl and libcrypto, plus custom SSH pubkey parsers. Supports RSA, DSA and EC curves P-256, P-384 and P-521. Cryptographic signatures can either be created and verified manually or via x509 certificates. AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public key) encryption or EC for Diffie Hellman. High-level envelope functions combine RSA and AES for encrypting arbitrary sized data. Other utilities include key generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random number generator, and 'bignum' math methods for manually performing crypto calculations on large multibyte integers.

r-openxlsx

Homepage:
Spack package:
Versions:
4.2.5, 4.2.3, 4.1.0.1
Build Dependencies:
r, r-stringi, r-zip, r-rcpp
Run Dependencies:
r, r-stringi, r-zip, r-rcpp
Description:
Read, Write and Edit xlsx Files. Simplifies the creation of Excel .xlsx files by providing a high level interface to writing, styling and editing worksheets. Through the use of 'Rcpp', read/write times are comparable to the 'xlsx' and 'XLConnect' packages with the added benefit of removing the dependency on Java.

r-optimx

Homepage:
Spack package:
Versions:
2021-10.12, 2020-4.2
Build Dependencies:
r, r-numderiv
Run Dependencies:
r, r-numderiv
Description:
Expanded Replacement and Extension of the 'optim' Function. Provides a replacement and extension of the optim() function to call to several function minimization codes in R in a single statement. These methods handle smooth, possibly box constrained functions of several or many parameters. Note that function 'optimr()' was prepared to simplify the incorporation of minimization codes going forward. Also implements some utility codes and some extra solvers, including safeguarded Newton methods. Many methods previously separate are now included here. This is the version for CRAN.

r-optparse

Homepage:
Spack package:
Versions:
1.7.1, 1.6.6, 1.6.2, 1.6.1, 1.6.0
Build Dependencies:
r, r-getopt
Run Dependencies:
r, r-getopt
Description:
Command Line Option Parser. A command line parser inspired by Python's 'optparse' library to be used with Rscript to write "#!" shebang scripts that accept short and long flag/options

r-ordinal

Homepage:
Spack package:
Versions:
2019.12-10, 2019.4-25
Build Dependencies:
r, r-ucminf, r-mass, r-matrix, r-numderiv
Run Dependencies:
r, r-ucminf, r-mass, r-matrix, r-numderiv
Description:
Regression Models for Ordinal Data. Implementation of cumulative link (mixed) models also known as ordered regression models, proportional odds models, proportional hazards models for grouped survival times and ordered logit/probit/... models. Estimation is via maximum likelihood and mixed models are fitted with the Laplace approximation and adaptive Gauss-Hermite quadrature. Multiple random effect terms are allowed and they may be nested, crossed or partially nested/crossed. Restrictions of symmetry and equidistance can be imposed on the thresholds (cut- points/intercepts). Standard model methods are available (summary, anova, drop-methods, step, confint, predict etc.) in addition to profile methods and slice methods for visualizing the likelihood function and checking convergence.

r-org-hs-eg-db

Homepage:
Spack package:
Versions:
3.14.0, 3.12.0, 3.8.2, 3.4.1
Build Dependencies:
r, r-annotationdbi
Run Dependencies:
r, r-annotationdbi
Description:
Genome wide annotation for Human. Genome wide annotation for Human, primarily based on mapping using Entrez Gene identifiers.

r-organismdbi

Homepage:
Spack package:
Versions:
1.36.0, 1.32.0, 1.26.0, 1.24.0, 1.22.0, 1.20.0, 1.18.1
Build Dependencies:
r, r-biocgenerics, r-annotationdbi, r-genomicfeatures, r-biobase, r-biocmanager, r-genomicranges, r-graph, r-iranges, r-rbgl, r-dbi, r-s4vectors, r-biocinstaller
Run Dependencies:
r, r-biocgenerics, r-annotationdbi, r-genomicfeatures, r-biobase, r-biocmanager, r-genomicranges, r-graph, r-iranges, r-rbgl, r-dbi, r-s4vectors, r-biocinstaller
Description:
Software to enable the smooth interfacing of different database packages. The package enables a simple unified interface to several annotation packages each of which has its own schema by taking advantage of the fact that each of these packages implements a select methods.

r-packrat

Homepage:
Spack package:
Versions:
0.7.0, 0.5.0, 0.4.9-3, 0.4.8-1, 0.4.7-1
Build Dependencies:
r
Run Dependencies:
r
Description:
A Dependency Management System for Projects and their R Package Dependencies. Manage the R packages your project depends on in an isolated, portable, and reproducible way.

r-pacman

Homepage:
Spack package:
Versions:
0.5.1, 0.5.0, 0.4.1
Build Dependencies:
r, r-remotes, r-devtools
Run Dependencies:
r, r-remotes, r-devtools
Description:
Package Management Tool. Tools to more conveniently perform tasks associated with add-on packages. pacman conveniently wraps library and package related functions and names them in an intuitive and consistent fashion. It seeks to combine functionality from lower level functions which can speed up workflow.

r-paleotree

Homepage:
Spack package:
Versions:
3.3.25, 3.3.0, 3.1.3
Build Dependencies:
r, r-ape, r-phangorn, r-phytools, r-jsonlite, r-png, r-rcurl
Run Dependencies:
r, r-ape, r-phangorn, r-phytools, r-jsonlite, r-png, r-rcurl
Description:
Paleontological and Phylogenetic Analyses of Evolution. Provides tools for transforming, a posteriori time-scaling, and modifying phylogenies containing extinct (i.e. fossil) lineages

r-pamr

Homepage:
Spack package:
Versions:
1.56.1, 1.55
Build Dependencies:
r, r-cluster, r-survival
Run Dependencies:
r, r-cluster, r-survival
Description:
Pam: Prediction Analysis for Microarrays Some functions for sample classification in microarrays.

r-pan

Homepage:
Spack package:
Versions:
1.6, 1.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Multiple imputation for multivariate panel or clustered data. It provides functions and examples for maximum likelihood estimation for generalized linear mixed models and Gibbs sampler for multivariate linear mixed models with incomplete data, as described in Schafer JL (1997) "Imputation of missing covariates under a multivariate linear mixed model". Technical report 97-04, Dept. of Statistics, The Pennsylvania State University.

r-parallelly

Homepage:
Spack package:
Versions:
1.30.0, 1.28.1, 1.23.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Enhancing the 'parallel' Package. Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.

r-parallelmap

Homepage:
Spack package:
Versions:
1.5.1, 1.5.0, 1.4, 1.3
Build Dependencies:
r, r-bbmisc, r-checkmate
Run Dependencies:
r, r-bbmisc, r-checkmate
Description:
Unified Interface to Parallelization Back-Ends. Unified parallelization framework for multiple back-end, designed for internal package and interactive usage. The main operation is a parallel "map" over lists. Supports local, multicore, mpi and BatchJobs mode. Allows "tagging" of the parallel operation with a level name that can be later selected by the user to switch on parallel execution for exactly this operation.

r-paramhelpers

Homepage:
Spack package:
Versions:
1.14, 1.12, 1.11, 1.10
Build Dependencies:
r, r-backports, r-bbmisc, r-checkmate, r-fastmatch
Run Dependencies:
r, r-backports, r-bbmisc, r-checkmate, r-fastmatch
Description:
Helpers for Parameters in Black-Box Optimization, Tuning and Machine Learning. Functions for parameter descriptions and operations in black- box optimization, tuning and machine learning. Parameters can be described (type, constraints, defaults, etc.), combined to parameter sets and can in general be programmed on. A useful OptPath object (archive) to log function evaluations is also provided.

r-party

Homepage:
Spack package:
Versions:
1.3-9, 1.3-5, 1.3-3, 1.3-2, 1.1-2
Build Dependencies:
r, r-mvtnorm, r-modeltools, r-strucchange, r-survival, r-coin, r-zoo, r-sandwich
Run Dependencies:
r, r-mvtnorm, r-modeltools, r-strucchange, r-survival, r-coin, r-zoo, r-sandwich
Description:
A Laboratory for Recursive Partytioning. A computational toolbox for recursive partitioning. The core of the package is ctree(), an implementation of conditional inference trees which embed tree- structured regression models into a well defined theory of conditional inference procedures. This non-parametric class of regression trees is applicable to all kinds of regression problems, including nominal, ordinal, numeric, censored as well as multivariate response variables and arbitrary measurement scales of the covariates. Based on conditional inference trees, cforest() provides an implementation of Breiman's random forests. The function mob() implements an algorithm for recursive partitioning based on parametric models (e.g. linear models, GLMs or survival regression) employing parameter instability tests for split selection. Extensible functionality for visualizing tree-structured regression models is available. The methods are described in Hothorn et al. (2006) <doi:10.1198/106186006X133933>, Zeileis et al. (2008) <doi:10.1198/106186008X319331> and Strobl et al. (2007) <doi:10.1186/1471-2105-8-25>.

r-partykit

Homepage:
Spack package:
Versions:
1.2-15, 1.2-11, 1.2-5, 1.2-3, 1.1-1
Build Dependencies:
r, r-libcoin, r-mvtnorm, r-survival, r-formula, r-inum, r-rpart
Run Dependencies:
r, r-libcoin, r-mvtnorm, r-survival, r-formula, r-inum, r-rpart
Description:
A Toolkit for Recursive Partytioning. A toolkit with infrastructure for representing, summarizing, and visualizing tree-structured regression and classification models. This unified infrastructure can be used for reading/coercing tree models from different sources ('rpart', 'RWeka', 'PMML') yielding objects that share functionality for print()/plot()/predict() methods. Furthermore, new and improved reimplementations of conditional inference trees (ctree()) and model- based recursive partitioning (mob()) from the 'party' package are provided based on the new infrastructure. A description of this package was published by Hothorn and Zeileis (2015) <https://jmlr.org/papers/v16/hothorn15a.html>.

r-patchwork

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
r, r-ggplot2, r-gtable
Run Dependencies:
r, r-ggplot2, r-gtable
Description:
The Composer of Plots. The 'ggplot2' package provides a strong API for sequentially building up a plot, but does not concern itself with composition of multiple plots. 'patchwork' is a package that expands the API to allow for arbitrarily complex composition of plots by, among others, providing mathematical operators for combining multiple plots. Other packages that try to address this need (but with a different approach) are 'gridExtra' and 'cowplot'.

r-pathview

Homepage:
Spack package:
Versions:
1.34.0, 1.30.1, 1.24.0, 1.22.3, 1.20.0, 1.18.2, 1.16.7
Build Dependencies:
r, r-kegggraph, r-xml, r-rgraphviz, r-graph, r-png, r-annotationdbi, r-org-hs-eg-db, r-keggrest
Run Dependencies:
r, r-kegggraph, r-xml, r-rgraphviz, r-graph, r-png, r-annotationdbi, r-org-hs-eg-db, r-keggrest
Description:
a tool set for pathway based data integration and visualization. Pathview is a tool set for pathway based data integration and visualization. It maps and renders a wide variety of biological data on relevant pathway graphs. All users need is to supply their data and specify the target pathway. Pathview automatically downloads the pathway graph data, parses the data file, maps user data to the pathway, and render pathway graph with the mapped data. In addition, Pathview also seamlessly integrates with pathway and gene set (enrichment) analysis tools for large-scale and fully automated analysis.

r-pbapply

Homepage:
Spack package:
Versions:
1.5-0, 1.4-3, 1.4-1, 1.3-4, 1.3-3, 1.3-2, 1.3-1, 1.3-0, 1.2-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Adding Progress Bar to '*apply' Functions. A lightweight package that adds progress bar to vectorized R functions ('*apply'). The implementation can easily be added to functions where showing the progress is useful (e.g. bootstrap). The type and style of the progress bar (with percentages or remaining time) can be set through options. Supports several parallel processing backends.

r-pbdzmq

Homepage:
Spack package:
Versions:
0.3-6, 0.3-4, 0.3-3, 0.3-2, 0.2-4
Build Dependencies:
r, libzmq, r-r6
Link Dependencies:
libzmq
Run Dependencies:
r, r-r6
Description:
Programming with Big Data -- Interface to 'ZeroMQ'. 'ZeroMQ' is a well- known library for high-performance asynchronous messaging in scalable, distributed applications. This package provides high level R wrapper functions to easily utilize 'ZeroMQ'. We mainly focus on interactive client/server programming frameworks. For convenience, a minimal 'ZeroMQ' library (4.1.0 rc1) is shipped with 'pbdZMQ', which can be used if no system installation of 'ZeroMQ' is available. A few wrapper functions compatible with 'rzmq' are also provided.

r-pbivnorm

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Vectorized Bivariate Normal CDF. Provides a vectorized R function for calculating probabilities from a standard bivariate normal CDF.

r-pbkrtest

Homepage:
Spack package:
Versions:
0.5.1, 0.5-0.1, 0.4-7, 0.4-6, 0.4-4
Build Dependencies:
r, r-lme4, r-broom, r-dplyr, r-magrittr, r-mass, r-matrix, r-numderiv, r-knitr
Run Dependencies:
r, r-lme4, r-broom, r-dplyr, r-magrittr, r-mass, r-matrix, r-numderiv, r-knitr
Description:
Parametric Bootstrap, Kenward-Roger and Satterthwaite Based Methods for Test in Mixed Models. Test in mixed effects models. Attention is on mixed effects models as implemented in the 'lme4' package. For linear mixed models, this package implements (1) a parametric bootstrap test, (2) a Kenward-Roger-typ modification of F-tests for linear mixed effects models and (3) a Satterthwaite-type modification of F-tests for linear mixed effects models. The package also implements a parametric bootstrap test for generalized linear mixed models. The facilities of the package are documented in the paper by Halehoh and Hojsgaard, (2012, <doi:10.18637/jss.v059.i09>). Please see 'citation("pbkrtest")' for citation details.

r-pcamethods

Homepage:
Spack package:
Versions:
1.86.0, 1.82.0, 1.76.0, 1.74.0, 1.72.0, 1.70.0, 1.68.0
Build Dependencies:
r, r-biobase, r-biocgenerics, r-rcpp, r-mass
Run Dependencies:
r, r-biobase, r-biocgenerics, r-rcpp, r-mass
Description:
A collection of PCA methods. Provides Bayesian PCA, Probabilistic PCA, Nipals PCA, Inverse Non-Linear PCA and the conventional SVD PCA. A cluster based method for missing value estimation is included for comparison. BPCA, PPCA and NipalsPCA may be used to perform PCA on incomplete data as well as for accurate missing value estimation. A set of methods for printing and plotting the results is also provided. All PCA methods make use of the same data structure (pcaRes) to provide a common interface to the PCA results. Initiated at the Max-Planck Institute for Molecular Plant Physiology, Golm, Germany.

r-pcapp

Homepage:
Spack package:
Versions:
1.9-74, 1.9-73, 1.9-72.1, 1.9-72, 1.9-70, 1.9-61, 1.9-60, 1.9-50
Build Dependencies:
r, r-mvtnorm
Run Dependencies:
r, r-mvtnorm
Description:
Provides functions for robust PCA by projection pursuit. Provides functions for robust PCA by projection pursuit. The methods are described in Croux et al. (2006) <doi:10.2139/ssrn.968376>, Croux et al. (2013) <doi:10.1080/00401706.2012.727746>, Todorov and Filzmoser (2013) <doi:10.1007/978-3-642-33042-1_31>.

r-pegas

Homepage:
Spack package:
Versions:
1.1, 0.14
Build Dependencies:
r, r-ape, r-adegenet
Run Dependencies:
r, r-ape, r-adegenet
Description:
Population and Evolutionary Genetics Analysis System. Functions for reading, writing, plotting, analysing, and manipulating allelic and haplotypic data, including from VCF files, and for the analysis of population nucleotide sequences and micro-satellites including coalescent analyses, linkage disequilibrium, population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.

r-permute

Homepage:
Spack package:
Versions:
0.9-7, 0.9-5, 0.9-4
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Generating Restricted Permutations of Data. A set of restricted permutation designs for freely exchangeable, line transects (time series), and spatial grid designs plus permutation of blocks (groups of samples) is provided. 'permute' also allows split-plot designs, in which the whole-plots or split-plots or both can be freely- exchangeable or one of the restricted designs. The 'permute' package is modelled after the permutation schemes of 'Canoco 3.1' (and later) by Cajo ter Braak.

r-pfam-db

Homepage:
Spack package:
Versions:
3.14.0, 3.12.0, 3.10.0, 3.4.1
Build Dependencies:
r, r-annotationdbi
Run Dependencies:
r, r-annotationdbi
Description:
A set of protein ID mappings for PFAM. A set of protein ID mappings for PFAM assembled using data from public repositories.

r-phangorn

Homepage:
Spack package:
Versions:
2.8.1, 2.5.5, 2.5.3, 2.3.1
Build Dependencies:
r, r-ape, r-fastmatch, r-igraph, r-matrix, r-quadprog, r-rcpp, r-magrittr
Run Dependencies:
r, r-ape, r-fastmatch, r-igraph, r-matrix, r-quadprog, r-rcpp, r-magrittr
Description:
Phylogenetic Reconstruction and Analysis. Allows for estimation of phylogenetic trees and networks using Maximum Likelihood, Maximum Parsimony, distance methods and Hadamard conjugation. Offers methods for tree comparison, model selection and visualization of phylogenetic networks as described in Schliep et al. (2017) <doi:10.1111/2041-210X.12760>.

r-phantompeakqualtools

Homepage:
Spack package:
Versions:
1.14
Build Dependencies:
r, boost, r-catools, r-snow, r-snowfall, r-bitops, r-rsamtools
Link Dependencies:
boost
Run Dependencies:
r, r-catools, r-snow, r-snowfall, r-bitops, r-rsamtools
Description:
Computes informative enrichment and quality measures for ChIP-seq/DNase- seq/FAIRE-seq/MNase-seq data. This is a modified version of r-spp to be used in conjunction with the phantompeakqualtools package.

r-pheatmap

Homepage:
Spack package:
Versions:
1.0.12
Build Dependencies:
r, r-rcolorbrewer, r-scales, r-gtable
Run Dependencies:
r, r-rcolorbrewer, r-scales, r-gtable
Description:
Pretty Heatmaps. Implementation of heatmaps that offers more control over dimensions and appearance.

r-philentropy

Homepage:
Spack package:
Versions:
0.6.0, 0.5.0, 0.4.0
Build Dependencies:
r, r-rcpp, r-kernsmooth, r-poorman, r-dplyr
Run Dependencies:
r, r-rcpp, r-kernsmooth, r-poorman, r-dplyr
Description:
Similarity and Distance Quantification Between Probability Functions. Computes 46 optimized distance and similarity measures for comparing probability functions (Drost (2018) <doi:10.21105/joss.00765>). These comparisons between probability functions have their foundations in a broad range of scientific disciplines from mathematics to ecology. The aim of this package is to provide a core framework for clustering, classification, statistical inference, goodness-of-fit, non-parametric statistics, information theory, and machine learning tasks that are based on comparing univariate or multivariate probability functions.

r-phylobase

Homepage:
Spack package:
Versions:
0.8.10
Build Dependencies:
r, r-ade4, r-ape, r-rcpp, r-rncl, r-rnexml
Run Dependencies:
r, r-ade4, r-ape, r-rcpp, r-rncl, r-rnexml
Description:
Base Package for Phylogenetic Structures and Comparative Data. Provides a base S4 class for comparative methods, incorporating one or more trees and trait data.

r-phyloseq

Homepage:
Spack package:
Versions:
1.38.0, 1.34.0, 1.28.0, 1.26.1, 1.24.2, 1.22.3, 1.20.0
Build Dependencies:
r, r-ade4, r-ape, r-biobase, r-biocgenerics, r-biomformat, r-biostrings, r-cluster, r-data-table, r-foreach, r-ggplot2, r-igraph, r-multtest, r-plyr, r-reshape2, r-scales, r-vegan
Run Dependencies:
r, r-ade4, r-ape, r-biobase, r-biocgenerics, r-biomformat, r-biostrings, r-cluster, r-data-table, r-foreach, r-ggplot2, r-igraph, r-multtest, r-plyr, r-reshape2, r-scales, r-vegan
Description:
Handling and analysis of high-throughput microbiome census data. phyloseq provides a set of classes and tools to facilitate the import, storage, analysis, and graphical display of microbiome census data.

r-phylostratr

Homepage:
Spack package:
Versions:
20190323
Build Dependencies:
r, r-ape, r-biostrings, r-curl, r-dplyr, r-ggplot2, r-scales, r-glue, r-gridextra, r-magrittr, r-purrr, r-readr, r-reshape2, r-rhmmer, r-rlang, r-tibble, r-taxizedb, r-tidyr
Run Dependencies:
r, r-ape, r-biostrings, r-curl, r-dplyr, r-ggplot2, r-scales, r-glue, r-gridextra, r-magrittr, r-purrr, r-readr, r-reshape2, r-rhmmer, r-rlang, r-tibble, r-taxizedb, r-tidyr
Description:
Predict and explore the age of genes using phylostratigraphic methods

r-phytools

Homepage:
Spack package:
Versions:
1.0-1, 0.7-70, 0.6-99, 0.6-60
Build Dependencies:
r, r-ape, r-maps, r-clustergeneration, r-coda, r-combinat, r-expm, r-mass, r-mnormt, r-nlme, r-numderiv, r-phangorn, r-plotrix, r-scatterplot3d, r-animation, r-gtools
Run Dependencies:
r, r-ape, r-maps, r-clustergeneration, r-coda, r-combinat, r-expm, r-mass, r-mnormt, r-nlme, r-numderiv, r-phangorn, r-plotrix, r-scatterplot3d, r-animation, r-gtools
Description:
Phylogenetic Tools for Comparative Biology (and Other Things). A wide range of functions for phylogenetic analysis. Functionality is concentrated in phylogenetic comparative biology, but also includes numerous methods for visualizing, manipulating, reading or writing, and even inferring phylogenetic trees and data. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, simulation of phylogenies and data, and multivariate analysis. There are a broad range of plotting methods for phylogenies and comparative data which include, but are not restricted to, methods for mapping trait evolution on trees, for projecting trees into phenotypic space or a geographic map, and for visualizing correlated speciation between trees. Finally, there are a number of functions for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data not covered by other packages. For instance, there are functions for randomly or non- randomly attaching species or clades to a phylogeny, for estimating supertrees or consensus phylogenies from a set, for simulating trees and phylogenetic data under a range of models, and for a wide variety of other manipulations and analyses that phylogenetic biologists might find useful in their research.

r-picante

Homepage:
Spack package:
Versions:
1.8.2, 1.8, 1.7, 1.6-2, 1.6-1
Build Dependencies:
r, r-ape, r-vegan, r-nlme
Run Dependencies:
r, r-ape, r-vegan, r-nlme
Description:
R tools for integrating phylogenies and ecology. Functions for phylocom integration, community analyses, null-models, traits and evolution. Implements numerous ecophylogenetic approaches including measures of community phylogenetic and trait diversity, phylogenetic signal, estimation of trait values for unobserved taxa, null models for community and phylogeny randomizations, and utility functions for data input/output and phylogeny plotting. A full description of package functionality and methods are provided by Kembel et al. (2010) <doi:10.1093/bioinformatics/btq166>.

r-pillar

Homepage:
Spack package:
Versions:
1.7.0, 1.6.5, 1.6.4, 1.4.7, 1.4.2, 1.4.1, 1.3.1, 1.3.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
r, r-cli, r-crayon, r-ellipsis, r-fansi, r-glue, r-lifecycle, r-rlang, r-utf8, r-vctrs
Run Dependencies:
r, r-cli, r-crayon, r-ellipsis, r-fansi, r-glue, r-lifecycle, r-rlang, r-utf8, r-vctrs
Description:
Coloured Formatting for Columns. Provides a 'pillar' generic designed for formatting columns of data using the full range of colours provided by modern terminals.

r-pinfsc50

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Sequence ('FASTA'), Annotation ('GFF') and Variants ('VCF') for 17 Samples of 'P. Infestans" and 1 'P. Mirabilis'. Genomic data for the plant pathogen "Phytophthora infestans." It includes a variant file ('VCF'), a sequence file ('FASTA') and an annotation file ('GFF'). This package is intended to be used as example data for packages that work with genomic data.

r-pixmap

Homepage:
Spack package:
Versions:
0.4-12, 0.4-11
Build Dependencies:
r
Run Dependencies:
r
Description:
Bitmap Images ("Pixel Maps"). Functions for import, export, plotting and other manipulations of bitmapped images.

r-pkgbuild

Homepage:
Spack package:
Versions:
1.3.1, 1.2.0, 1.0.8, 1.0.4, 1.0.3
Build Dependencies:
r, r-callr, r-cli, r-crayon, r-desc, r-prettyunits, r-r6, r-rprojroot, r-withr
Run Dependencies:
r, r-callr, r-cli, r-crayon, r-desc, r-prettyunits, r-r6, r-rprojroot, r-withr
Description:
Find Tools Needed to Build R Packages. Provides functions used to build R packages. Locates compilers needed to build R packages on various platforms and ensures the PATH is configured appropriately so R can use them.

r-pkgcache

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
r, r-assertthat, r-callr, r-cli, r-curl, r-digest, r-filelock, r-glue, r-jsonlite, r-prettyunits, r-r6, r-processx, r-rappdirs, r-rlang, r-tibble, r-uuid
Run Dependencies:
r, r-assertthat, r-callr, r-cli, r-curl, r-digest, r-filelock, r-glue, r-jsonlite, r-prettyunits, r-r6, r-processx, r-rappdirs, r-rlang, r-tibble, r-uuid
Description:
Cache 'CRAN'-Like Metadata and R Packages. Metadata and package cache for CRAN-like repositories. This is a utility package to be used by package management tools that want to take advantage of caching.

r-pkgconfig

Homepage:
Spack package:
Versions:
2.0.3, 2.0.2, 2.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Private Configuration for 'R' Packages. Set configuration options on a per-package basis. Options set by a given package only apply to that package, other packages are unaffected.

r-pkgdepends

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
r, r-callr, r-cli, r-crayon, r-curl, r-desc, r-filelock, r-glue, r-jsonlite, r-lpsolve, r-pkgbuild, r-pkgcache, r-prettyunits, r-processx, r-ps, r-rematch2, r-rprojroot, r-r6, r-tibble, r-withr, r-zip
Run Dependencies:
r, r-callr, r-cli, r-crayon, r-curl, r-desc, r-filelock, r-glue, r-jsonlite, r-lpsolve, r-pkgbuild, r-pkgcache, r-prettyunits, r-processx, r-ps, r-rematch2, r-rprojroot, r-r6, r-tibble, r-withr, r-zip
Description:
Package Dependency Resolution and Downloads. Find recursive dependencies of 'R' packages from various sources. Solve the dependencies to obtain a consistent set of packages to install. Download packages, and install them. It supports packages on 'CRAN', 'Bioconductor' and other 'CRAN- like' repositories, 'GitHub', package 'URLs', and local package trees and files. It caches metadata and package files via the 'pkgcache' package, and performs all 'HTTP' requests, downloads, builds and installations in parallel. 'pkgdepends' is the workhorse of the 'pak' package.

r-pkgload

Homepage:
Spack package:
Versions:
1.2.4, 1.1.0, 1.0.2
Build Dependencies:
r, r-cli, r-crayon, r-desc, r-rlang, r-rprojroot, r-rstudioapi, r-withr, r-pkgbuild
Run Dependencies:
r, r-cli, r-crayon, r-desc, r-rlang, r-rprojroot, r-rstudioapi, r-withr, r-pkgbuild
Description:
Simulate Package Installation and Attach. Simulates the process of installing a package and then attaching it. This is a key part of the 'devtools' package as it allows you to rapidly iterate while developing a package.

r-pkgmaker

Homepage:
Spack package:
Versions:
0.32.2, 0.27
Build Dependencies:
r, r-registry, r-codetools, r-digest, r-stringr, r-xtable, r-withr, r-assertthat, r-stringi, r-magrittr, r-bibtex
Run Dependencies:
r, r-registry, r-codetools, r-digest, r-stringr, r-xtable, r-withr, r-assertthat, r-stringi, r-magrittr, r-bibtex
Description:
Development Utilities for R Packages. This package provides some low- level utilities to use for package development. It currently provides managers for multiple package specific options and registries, vignette, unit test and bibtex related utilities. It serves as a base package for packages like NMF, RcppOctave, doRNG, and as an incubator package for other general purposes utilities, that will eventually be packaged separately. It is still under heavy development and changes in the interface(s) are more than likely to happen.

r-plogr

Homepage:
Spack package:
Versions:
0.2.0, 0.1-1
Build Dependencies:
r
Run Dependencies:
r
Description:
The 'plog' C++ Logging Library. A simple header-only logging library for C++. Add 'LinkingTo: plogr' to 'DESCRIPTION', and '#include <plogr.h>' in your C++ modules to use it.

r-plot3d

Homepage:
Spack package:
Versions:
1.4, 1.3, 1.1.1
Build Dependencies:
r, r-misc3d
Run Dependencies:
r, r-misc3d
Description:
Plotting Multi-Dimensional Data. Functions for viewing 2-D and 3-D data, including perspective plots, slice plots, surface plots, scatter plots, etc. Includes data sets from oceanography.

r-plotly

Homepage:
Spack package:
Versions:
4.10.0, 4.9.3, 4.9.0, 4.8.0, 4.7.1, 4.7.0, 4.6.0, 4.5.6, 4.5.2
Build Dependencies:
r, r-ggplot2, r-scales, r-httr, r-jsonlite, r-magrittr, r-digest, r-viridislite, r-base64enc, r-htmltools, r-htmlwidgets, r-tidyr, r-rcolorbrewer, r-dplyr, r-vctrs, r-tibble, r-lazyeval, r-rlang, r-crosstalk, r-purrr, r-data-table, r-promises, r-hexbin
Run Dependencies:
r, r-ggplot2, r-scales, r-httr, r-jsonlite, r-magrittr, r-digest, r-viridislite, r-base64enc, r-htmltools, r-htmlwidgets, r-tidyr, r-rcolorbrewer, r-dplyr, r-vctrs, r-tibble, r-lazyeval, r-rlang, r-crosstalk, r-purrr, r-data-table, r-promises, r-hexbin
Description:
Create Interactive Web Graphics via 'plotly.js'. Create interactive web graphics from 'ggplot2' graphs and/or a custom interface to the (MIT- licensed) JavaScript library 'plotly.js' inspired by the grammar of graphics.

r-plotmo

Homepage:
Spack package:
Versions:
3.6.1, 3.6.0, 3.5.6
Build Dependencies:
r, r-formula, r-plotrix, r-teachingdemos
Run Dependencies:
r, r-formula, r-plotrix, r-teachingdemos
Description:
Plot a Model's Residuals, Response, and Partial Dependence Plots. Plot model surfaces for a wide variety of models using partial dependence plots and other techniques. Also plot model residuals and other information on the model.

r-plotrix

Homepage:
Spack package:
Versions:
3.8-2, 3.7-8, 3.7-6, 3.7-5, 3.6-4, 3.6-3
Build Dependencies:
r
Run Dependencies:
r
Description:
Various Plotting Functions. Lots of plots, various labeling, axis and color scaling functions.

r-pls

Homepage:
Spack package:
Versions:
2.8-0, 2.7-3, 2.7-1, 2.7-0, 2.6-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Partial Least Squares and Principal Component Regression. Multivariate regression methods Partial Least Squares Regression (PLSR), Principal Component Regression (PCR) and Canonical Powered Partial Least Squares (CPPLS).

r-plyr

Homepage:
Spack package:
Versions:
1.8.6, 1.8.4
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Tools for Splitting, Applying and Combining Data. A set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each piece and then put all the pieces back together. For example, you might want to fit a model to each spatial location or time point in your study, summarise data by panels or collapse high-dimensional arrays to simpler summary statistics. The development of 'plyr' has been generously supported by 'Becton Dickinson'.

r-pmcmr

Homepage:
Spack package:
Versions:
4.4, 4.3, 4.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Calculate Pairwise Multiple Comparisons of Mean Rank Sums. Note, that the 'PMCMR' package is superset by the novel 'PMCMRplus' package. The 'PMCMRplus' package contains all functions from 'PMCMR' and many more parametric and non-parametric multiple comparison procedures, one- factorial trend tests, as well as improved method functions, such as print, summary and plot. The 'PMCMR' package is no longer maintained, but kept for compatibility of reverse depending packages for some time.

r-pmcmrplus

Homepage:
Spack package:
Versions:
1.9.3
Build Dependencies:
r, r-mvtnorm, r-multcompview, r-gmp, r-rmpfr, r-suppdists, r-ksamples, r-bwstest, r-mass, gmp, mpfr
Link Dependencies:
gmp, mpfr
Run Dependencies:
r, r-mvtnorm, r-multcompview, r-gmp, r-rmpfr, r-suppdists, r-ksamples, r-bwstest, r-mass
Description:
Calculate Pairwise Multiple Comparisons of Mean Rank Sums Extended. For one-way layout experiments the one-way ANOVA can be performed as an omnibus test. All-pairs multiple comparisons tests (Tukey-Kramer test, Scheffe test, LSD-test) and many-to-one tests (Dunnett test) for normally distributed residuals and equal within variance are available. Furthermore, all-pairs tests (Games-Howell test, Tamhane's T2 test, Dunnett T3 test, Ury-Wiggins-Hochberg test) and many-to-one (Tamhane- Dunnett Test) for normally distributed residuals and heterogeneous variances are provided. Van der Waerden's normal scores test for omnibus, all-pairs and many-to-one tests is provided for non-normally distributed residuals and homogeneous variances. The Kruskal-Wallis, BWS and Anderson-Darling omnibus test and all-pairs tests (Nemenyi test, Dunn test, Conover test, Dwass-Steele-Critchlow- Fligner test) as well as many-to-one (Nemenyi test, Dunn test, U-test) are given for the analysis of variance by ranks. Non-parametric trend tests (Jonckheere test, Cuzick test, Johnson-Mehrotra test, Spearman test) are included. In addition, a Friedman-test for one-way ANOVA with repeated measures on ranks (CRBD) and Skillings-Mack test for unbalanced CRBD is provided with consequent all-pairs tests (Nemenyi test, Siegel test, Miller test, Conover test, Exact test) and many-to-one tests (Nemenyi test, Demsar test, Exact test). A trend can be tested with Pages's test. Durbin's test for a two-way balanced incomplete block design (BIBD) is given in this package as well as Gore's test for CRBD with multiple observations per cell is given. Outlier tests, Mandel's k- and h statistic as well as functions for Type I error and Power analysis as well as generic summary, print and plot methods are provided.

r-png

Homepage:
Spack package:
Versions:
0.1-7
Build Dependencies:
r, libpng
Link Dependencies:
libpng
Run Dependencies:
r
Description:
Read and write PNG images. This package provides an easy and simple way to read, write and display bitmap images stored in the PNG format. It can read and write both files and in-memory raw vectors.

r-polspline

Homepage:
Spack package:
Versions:
1.1.19, 1.1.18, 1.1.17, 1.1.16, 1.1.15
Build Dependencies:
r
Run Dependencies:
r
Description:
Polynomial Spline Routines. Routines for the polynomial spline fitting routines hazard regression, hazard estimation with flexible tails, logspline, lspec, polyclass, and polymars, by C. Kooperberg and co- authors.

r-polyclip

Homepage:
Spack package:
Versions:
1.10-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Polygon Clipping. R port of Angus Johnson's open source library Clipper. Performs polygon clipping operations (intersection, union, set minus, set difference) for polygonal regions of arbitrary complexity, including holes. Computes offset polygons (spatial buffer zones, morphological dilations, Minkowski dilations) for polygonal regions and polygonal lines. Computes Minkowski Sum of general polygons. There is a function for removing self-intersections from polygon data.

r-polynom

Homepage:
Spack package:
Versions:
1.4-0
Build Dependencies:
r
Run Dependencies:
r
Description:
A collection of functions to implement a class for univariate polynomial manipulations.

r-pool

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
r, r-dbi, r-r6, r-later
Run Dependencies:
r, r-dbi, r-r6, r-later
Description:
Object Pooling. Enables the creation of object pools, which make it less computationally expensive to fetch a new object. Currently the only supported pooled objects are 'DBI' connections.

r-poorman

Homepage:
Spack package:
Versions:
0.2.5
Build Dependencies:
r
Run Dependencies:
r
Description:
A Poor Man's Dependency Free Recreation of 'dplyr'. A replication of key functionality from 'dplyr' and the wider 'tidyverse' using only 'base'.

r-popgenome

Homepage:
Spack package:
Versions:
2.7.5, 2.7.1, 2.6.1
Build Dependencies:
r, r-ff, zlib
Link Dependencies:
zlib
Run Dependencies:
r, r-ff
Description:
An Efficient Swiss Army Knife for Population Genomic Analyses. Provides efficient tools for population genomics data analysis, able to process individual loci, large sets of loci, or whole genomes. PopGenome <DOI:10.1093/molbev/msu136> not only implements a wide range of population genetics statistics, but also facilitates the easy implementation of new algorithms by other researchers. PopGenome is optimized for speed via the seamless integration of C code.

r-popvar

Homepage:
Spack package:
Versions:
1.3.0, 1.2.1
Build Dependencies:
r, r-bglr, r-qtl, r-rrblup
Run Dependencies:
r, r-bglr, r-qtl, r-rrblup
Description:
Genomic Breeding Tools: Genetic Variance Prediction and Cross- Validation. The main attribute of 'PopVar' is the prediction of genetic variance in bi-parental populations, from which the package derives its name. 'PopVar' contains a set of functions that use phenotypic and genotypic data from a set of candidate parents to 1) predict the mean, genetic variance, and superior progeny value of all, or a defined set of pairwise bi-parental crosses, and 2) perform cross-validation to estimate genome-wide prediction accuracy of multiple statistical models. More details are available in Mohammadi, Tiede, and Smith (2015, <doi:10.2135/cropsci2015.01.0030>). A dataset 'think_barley.rda' is included for reference and examples.

r-posterior

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0
Build Dependencies:
r, r-abind, r-checkmate, r-rlang, r-tibble, r-vctrs, r-tensora, r-pillar, r-distributional, r-matrixstats
Run Dependencies:
r, r-abind, r-checkmate, r-rlang, r-tibble, r-vctrs, r-tensora, r-pillar, r-distributional, r-matrixstats
Description:
Tools for Working with Posterior Distributions. Provides useful tools for both users and developers of packages for fitting Bayesian models or working with output from Bayesian models. The primary goals of the package are to: (a) Efficiently convert between many different useful formats of draws (samples) from posterior or prior distributions. (b) Provide consistent methods for operations commonly performed on draws, for example, subsetting, binding, or mutating draws. (c) Provide various summaries of draws in convenient formats. (d) Provide lightweight implementations of state of the art posterior inference diagnostics. References: Vehtari et al. (2021) <doi:10.1214/20-BA1221>.

r-powerlaw

Homepage:
Spack package:
Versions:
0.70.6, 0.70.2, 0.70.1
Build Dependencies:
r, r-pracma, r-vgam
Run Dependencies:
r, r-pracma, r-vgam
Description:
Analysis of Heavy Tailed Distributions. An implementation of maximum likelihood estimators for a variety of heavy tailed distributions, including both the discrete and continuous power law distributions. Additionally, a goodness-of-fit based approach is used to estimate the lower cut-off for the scaling region.

r-prabclus

Homepage:
Spack package:
Versions:
2.3-2, 2.3-1, 2.2-7.1, 2.2-6
Build Dependencies:
r, r-mass, r-mclust
Run Dependencies:
r, r-mass, r-mclust
Description:
Functions for Clustering of Presence-Absence, Abundance and Multilocus Genetic Data. Distance-based parametric bootstrap tests for clustering with spatial neighborhood information. Some distance measures, Clustering of presence-absence, abundance and multilocus genetic data for species delimitation, nearest neighbor based noise detection. Genetic distances between communities. Tests whether various distance- based regressions are equal. Try package?prabclus for on overview.

r-pracma

Homepage:
Spack package:
Versions:
2.3.6, 2.2.9
Build Dependencies:
r
Run Dependencies:
r
Description:
Practical Numerical Math Functions. Provides a large number of functions from numerical analysis and linear algebra, numerical optimization, differential equations, time series, plus some well-known special mathematical functions. Uses 'MATLAB' function names where appropriate to simplify porting.

r-praise

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Praise Users. Build friendly R packages that praise their users if they have done something good, or they just need it to feel better.

r-preprocesscore

Homepage:
Spack package:
Versions:
1.56.0, 1.52.1, 1.46.0, 1.44.0, 1.42.0, 1.40.0, 1.38.1
Build Dependencies:
r
Run Dependencies:
r
Description:
A collection of pre-processing functions. A library of core preprocessing routines.

r-prettydoc

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
r, r-rmarkdown, pandoc
Run Dependencies:
r, r-rmarkdown
Description:
Creating Pretty Documents from R Markdown. Creating tiny yet beautiful documents and vignettes from R Markdown. The package provides the 'html_pretty' output format as an alternative to the 'html_document' and 'html_vignette' engines that convert R Markdown into HTML pages. Various themes and syntax highlight styles are supported.

r-prettyunits

Homepage:
Spack package:
Versions:
1.1.1, 1.0.2
Build Dependencies:
r, r-magrittr, r-assertthat
Run Dependencies:
r, r-magrittr, r-assertthat
Description:
Pretty, Human Readable Formatting of Quantities. Pretty, human readable formatting of quantities. Time intervals: 1337000 -> 15d 11h 23m 20s. Vague time intervals: 2674000 -> about a month ago. Bytes: 1337 -> 1.34 kB.

r-proc

Homepage:
Spack package:
Versions:
1.18.0, 1.17.0.1
Build Dependencies:
r, r-plyr, r-rcpp
Run Dependencies:
r, r-plyr, r-rcpp
Description:
Display and Analyze ROC Curves. Tools for visualizing, smoothing and comparing receiver operating characteristic (ROC curves). (Partial) area under the curve (AUC) can be compared with statistical tests based on U-statistics or bootstrap. Confidence intervals can be computed for (p)AUC or ROC curves.

r-processx

Homepage:
Spack package:
Versions:
3.5.2, 3.4.5, 3.4.1, 3.3.1, 3.2.0, 3.1.0, 3.0.3, 2.0.0.1, 2.0.0
Build Dependencies:
r, r-ps, r-r6, r-assertthat, r-crayon, r-debugme
Run Dependencies:
r, r-ps, r-r6, r-assertthat, r-crayon, r-debugme
Description:
Execute and Control System Processes. Tools to run system processes in the background. It can check if a background process is running; wait on a background process to finish; get the exit status of finished processes; kill background processes. It can read the standard output and error of the processes, using non-blocking connections. 'processx' can poll a process for standard output or error, with a timeout. It can also poll several processes at once.

r-prodlim

Homepage:
Spack package:
Versions:
2019.11.13, 2018.04.18, 1.6.1, 1.5.9
Build Dependencies:
r, r-rcpp, r-survival, r-kernsmooth, r-lava
Run Dependencies:
r, r-rcpp, r-survival, r-kernsmooth, r-lava
Description:
Product-Limit Estimation for Censored Event History Analysis. Product- Limit Estimation for Censored Event History Analysis. Fast and user friendly implementation of nonparametric estimators for censored event history (survival) analysis. Kaplan-Meier and Aalen-Johansen method.

r-progress

Homepage:
Spack package:
Versions:
1.2.2, 1.2.1, 1.1.2
Build Dependencies:
r, r-r6, r-prettyunits, r-hms, r-crayon
Run Dependencies:
r, r-r6, r-prettyunits, r-hms, r-crayon
Description:
Terminal Progress Bars. Configurable Progress bars, they may include percentage, elapsed time, and/or the estimated completion time. They work in terminals, in 'Emacs' 'ESS', 'RStudio', 'Windows' 'Rgui' and the 'macOS' 'R.app'. The package also provides a 'C++' 'API', that works with or without 'Rcpp'.

r-progressr

Homepage:
Spack package:
Versions:
0.10.0
Build Dependencies:
r, r-digest
Run Dependencies:
r, r-digest
Description:
An Inclusive, Unifying API for Progress Updates. A minimal, unifying API for scripts and packages to report progress updates from anywhere including when using parallel processing. The package is designed such that the developer can to focus on what progress should be reported on without having to worry about how to present it. The end user has full control of how, where, and when to render these progress updates, e.g. in the terminal using utils::txtProgressBar() or progress::progress_bar(), in a graphical user interface using utils::winProgressBar(), tcltk::tkProgressBar() or shiny::withProgress(), via the speakers using beep::beepr(), or on a file system via the size of a file. Anyone can add additional, customized, progression handlers. The 'progressr' package uses R's condition framework for signaling progress updated. Because of this, progress can be reported from almost anywhere in R, e.g. from classical for and while loops, from map-reduce API:s like the lapply() family of functions, 'purrr', 'plyr', and 'foreach'. It will also work with parallel processing via the 'future' framework, e.g. future.apply::future_lapply(), furrr::future_map(), and 'foreach' with 'doFuture'. The package is compatible with Shiny applications.

r-proj

Homepage:
Spack package:
Versions:
0.4.0, 0.1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Generic Coordinate System Transformations Using 'PROJ'. Currently non- operational, a harmless wrapper to allow package 'reproj' to install and function while relying on the 'proj4' package.

r-proj4

Homepage:
Spack package:
Versions:
1.0-11, 1.0-10.1, 1.0-10, 1.0-8.1
Build Dependencies:
r, proj, sqlite
Link Dependencies:
proj, sqlite
Run Dependencies:
r
Description:
A simple interface to the PROJ.4 cartographic projections library. A simple interface to lat/long projection and datum transformation of the PROJ.4 cartographic projections library. It allows transformation of geographic coordinates from one projection and/or datum to another.

r-projpred

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
r, r-dplyr, r-loo, r-rstantools, r-lme4, r-optimx, r-ggplot2, r-rcpp, r-rngtools, r-tidyverse, r-mass, r-magrittr, r-mgcv, r-gamm4, r-rcpparmadillo
Run Dependencies:
r, r-dplyr, r-loo, r-rstantools, r-lme4, r-optimx, r-ggplot2, r-rcpp, r-rngtools, r-tidyverse, r-mass, r-magrittr, r-mgcv, r-gamm4, r-rcpparmadillo
Description:
Projection Predictive Feature Selection. Performs projection predictive feature selection for generalized linear models and generalized linear and additive multilevel models (see, Piironen, Paasiniemi and Vehtari, 2020, <https://projecteuclid.org/euclid.ejs/1589335310>, Catalina, Burkner and Vehtari, 2020, <arXiv:2010.06994>). The package is compatible with the 'rstanarm' and 'brms' packages, but other reference models can also be used. See the package vignette for more information and examples.

r-promises

Homepage:
Spack package:
Versions:
1.2.0.1, 1.1.1, 1.0.1
Build Dependencies:
r, r-r6, r-rcpp, r-later, r-rlang, r-magrittr
Run Dependencies:
r, r-r6, r-rcpp, r-later, r-rlang, r-magrittr
Description:
Abstractions for Promise-Based Asynchronous Programming. Provides fundamental abstractions for doing asynchronous programming in R using promises. Asynchronous programming is useful for allowing a single R process to orchestrate multiple tasks in the background while also attending to something else. Semantics are similar to 'JavaScript' promises, but with a syntax that is idiomatic R.

r-protgenerics

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.16.0, 1.14.0, 1.12.0, 1.10.0, 1.8.0
Build Dependencies:
r
Run Dependencies:
r
Description:
S4 generic functions for Bioconductor proteomics infrastructure. S4 generic functions needed by Bioconductor proteomics packages.

r-proto

Homepage:
Spack package:
Versions:
1.0.0, 0.3-10
Build Dependencies:
r
Run Dependencies:
r
Description:
Prototype Object-Based Programming. An object oriented system using object-based, also called prototype-based, rather than class-based object oriented ideas.

r-proxy

Homepage:
Spack package:
Versions:
0.4-26, 0.4-24, 0.4-23, 0.4-19
Build Dependencies:
r
Run Dependencies:
r
Description:
Distance and Similarity Measures. Provides an extensible framework for the efficient calculation of auto- and cross-proximities, along with implementations of the most popular ones.

r-pryr

Homepage:
Spack package:
Versions:
0.1.5, 0.1.4, 0.1.3, 0.1.2
Build Dependencies:
r, r-stringr, r-codetools, r-rcpp, r-lobstr
Run Dependencies:
r, r-stringr, r-codetools, r-rcpp, r-lobstr
Description:
Tools for Computing on the Language. Useful tools to pry back the covers of R and understand the language at a deeper level.

r-ps

Homepage:
Spack package:
Versions:
1.6.0, 1.5.0, 1.3.0, 1.2.1, 1.1.0, 1.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
List, Query, Manipulate System Processes. List, query and manipulate all system processes, on 'Windows', 'Linux' and 'macOS'.

r-pscbs

Homepage:
Spack package:
Versions:
0.66.0, 0.65.0
Build Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-r-cache, r-matrixstats, r-aroma-light, r-dnacopy, r-listenv, r-future
Run Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-r-cache, r-matrixstats, r-aroma-light, r-dnacopy, r-listenv, r-future
Description:
Analysis of Parent-Specific DNA Copy Numbers. Segmentation of allele- specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.

r-pspline

Homepage:
Spack package:
Versions:
1.0-18
Build Dependencies:
r
Run Dependencies:
r
Description:
Penalized Smoothing Splines. Smoothing splines with penalties on order m derivatives.

r-psych

Homepage:
Spack package:
Versions:
2.1.9, 2.0.12, 1.8.12, 1.8.10, 1.7.8
Build Dependencies:
r, r-mnormt, r-lattice, r-nlme, r-foreign
Run Dependencies:
r, r-mnormt, r-lattice, r-nlme, r-foreign
Description:
Procedures for Psychological, Psychometric, and Personality Research. A general purpose toolbox for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Functions for simulating and testing particular item and test structures are included. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, factor analysis and structural equation models are created using basic graphics. Some of the functions are written to support a book on psychometric theory as well as publications in personality research. For more information, see the <http://personality-project.org/r> web page.

r-ptw

Homepage:
Spack package:
Versions:
1.9-16, 1.9-15, 1.9-13, 1.9-12
Build Dependencies:
r, r-nloptr, r-rcppde
Run Dependencies:
r, r-nloptr, r-rcppde
Description:
Parametric Time Warping. Parametric Time Warping aligns patterns, i.e. it aims to put corresponding features at the same locations. The algorithm searches for an optimal polynomial describing the warping. It is possible to align one sample to a reference, several samples to the same reference, or several samples to several references. One can choose between calculating individual warpings, or one global warping for a set of samples and one reference. Two optimization criteria are implemented: RMS (Root Mean Square error) and WCC (Weighted Cross Correlation). Both warping of peak profiles and of peak lists are supported. A vignette for the latter is contained in the inst/doc directory of the source package - the vignette source can be found on the package github site.

r-purrr

Homepage:
Spack package:
Versions:
0.3.4, 0.3.2, 0.3.1, 0.2.4
Build Dependencies:
r, r-magrittr, r-rlang, r-tibble
Run Dependencies:
r, r-magrittr, r-rlang, r-tibble
Description:
Functional Programming Tools. A complete and consistent functional programming toolkit for R.

r-pvclust

Homepage:
Spack package:
Versions:
2.2-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling. An implementation of multiscale bootstrap resampling for assessing the uncertainty in hierarchical cluster analysis. It provides SI (selective inference) p-value, AU (approximately unbiased) p-value and BP (bootstrap probability) value for each cluster in a dendrogram.

r-qs

Homepage:
Spack package:
Versions:
0.25.2, 0.23.6
Build Dependencies:
r, r-rcpp, r-rapiserialize, r-stringfish
Run Dependencies:
r, r-rcpp, r-rapiserialize, r-stringfish
Description:
Quick Serialization of R Objects. Provides functions for quickly writing and reading any R object to and from disk.

r-qtl

Homepage:
Spack package:
Versions:
1.50, 1.47-9, 1.44-9
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for Analyzing QTL Experiments. Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits. Broman et al. (2003) <doi:10.1093/bioinformatics/btg112>.

r-quadprog

Homepage:
Spack package:
Versions:
1.5-8, 1.5-7, 1.5-6, 1.5-5
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions to Solve Quadratic Programming Problems. This package contains routines and documentation for solving quadratic programming problems.

r-quantmod

Homepage:
Spack package:
Versions:
0.4.18, 0.4-15, 0.4-14, 0.4-10, 0.4-5
Build Dependencies:
r, r-xts, r-zoo, r-ttr, r-curl
Run Dependencies:
r, r-xts, r-zoo, r-ttr, r-curl
Description:
Quantitative Financial Modelling Framework. Specify, build, trade, and analyse quantitative financial trading strategies.

r-quantreg

Homepage:
Spack package:
Versions:
5.88, 5.87, 5.86, 5.82, 5.51, 5.42.1, 5.40, 5.29, 5.26
Build Dependencies:
r, r-sparsem, r-matrix, r-matrixmodels, r-conquer
Run Dependencies:
r, r-sparsem, r-matrix, r-matrixmodels, r-conquer
Description:
Quantile Regression. Estimation and inference methods for models of conditional quantiles: Linear and nonlinear parametric and non- parametric (total variation penalized) models for conditional quantiles of a univariate response and several methods for handling censored survival data. Portfolio selection methods based on expected shortfall risk are also now included. See Koenker (2006) <doi:10.1017/CBO9780511754098> and Koenker et al. (2017) <doi:10.1201/9781315120256>.

r-quantro

Homepage:
Spack package:
Versions:
1.28.0, 1.24.0, 1.18.0, 1.16.0, 1.14.0, 1.12.0, 1.10.0
Build Dependencies:
r, r-biobase, r-minfi, r-doparallel, r-foreach, r-iterators, r-ggplot2, r-rcolorbrewer
Run Dependencies:
r, r-biobase, r-minfi, r-doparallel, r-foreach, r-iterators, r-ggplot2, r-rcolorbrewer
Description:
A test for when to use quantile normalization. A data-driven test for the assumptions of quantile normalization using raw data such as objects that inherit eSets (e.g. ExpressionSet, MethylSet). Group level information about each sample (such as Tumor / Normal status) must also be provided because the test assesses if there are global differences in the distributions between the user-defined groups.

r-questionr

Homepage:
Spack package:
Versions:
0.7.7, 0.7.6, 0.7.4
Build Dependencies:
r, r-shiny, r-miniui, r-rstudioapi, r-highr, r-styler, r-classint, r-htmltools, r-labelled, xclip
Link Dependencies:
xclip
Run Dependencies:
r, r-shiny, r-miniui, r-rstudioapi, r-highr, r-styler, r-classint, r-htmltools, r-labelled
Description:
Functions to Make Surveys Processing Easier. Set of functions to make the processing and analysis of surveys easier: interactive shiny apps and addins for data recoding, contingency tables, dataset metadata handling, and several convenience functions.

r-quickplot

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
r, r-backports, r-data-table, r-fpcompare, r-ggplot2, r-gridbase, r-igraph, r-raster, r-rcolorbrewer, r-rgdal, r-rgeos, r-sp
Run Dependencies:
r, r-backports, r-data-table, r-fpcompare, r-ggplot2, r-gridbase, r-igraph, r-raster, r-rcolorbrewer, r-rgdal, r-rgeos, r-sp
Description:
A System of Plotting Optimized for Speed and Modularity. A high-level plotting system, built using 'grid' graphics, that is optimized for speed and modularity. This has great utility for quick visualizations when testing code, with the key benefit that visualizations are updated independently of one another.

r-qvalue

Homepage:
Spack package:
Versions:
2.26.0, 2.22.0, 2.16.0, 2.14.1, 2.12.0, 2.10.0, 2.8.0
Build Dependencies:
r, r-ggplot2, r-reshape2
Run Dependencies:
r, r-ggplot2, r-reshape2
Description:
Q-value estimation for false discovery rate control. This package takes a list of p-values resulting from the simultaneous testing of many hypotheses and estimates their q-values and local FDR values. The q-value of a test measures the proportion of false positives incurred (called the false discovery rate) when that particular test is called significant. The local FDR measures the posterior probability the null hypothesis is true given the test's p-value. Various plots are automatically generated, allowing one to make sensible significance cut- offs. Several mathematical results have recently been shown on the conservative accuracy of the estimated q-values from this software. The software can be applied to problems in genomics, brain imaging, astrophysics, and data mining.

r-r-cache

Homepage:
Spack package:
Versions:
0.15.0, 0.14.0
Build Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-digest
Run Dependencies:
r, r-r-methodss3, r-r-oo, r-r-utils, r-digest
Description:
Fast and Light-Weight Caching (Memoization) of Objects and Results to Speed Up Computations. Memoization can be used to speed up repetitive and computational expensive function calls. The first time a function that implements memoization is called the results are stored in a cache memory. The next time the function is called with the same set of parameters, the results are momentarily retrieved from the cache avoiding repeating the calculations. With this package, any R object can be cached in a key-value storage where the key can be an arbitrary set of R objects. The cache memory is persistent (on the file system).

r-r-methodss3

Homepage:
Spack package:
Versions:
1.8.1, 1.7.1
Build Dependencies:
r
Run Dependencies:
r
Description:
S3 Methods Simplified. Methods that simplify the setup of S3 generic functions and S3 methods. Major effort has been made in making definition of methods as simple as possible with a minimum of maintenance for package developers. For example, generic functions are created automatically, if missing, and naming conflict are automatically solved, if possible. The method setMethodS3() is a good start for those who in the future may want to migrate to S4. This is a cross-platform package implemented in pure R that generates standard S3 methods.

r-r-oo

Homepage:
Spack package:
Versions:
1.24.0, 1.23.0, 1.22.0, 1.21.0
Build Dependencies:
r, r-r-methodss3
Run Dependencies:
r, r-r-methodss3
Description:
R Object-Oriented Programming with or without References. Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintenance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.

r-r-utils

Homepage:
Spack package:
Versions:
2.11.0, 2.10.1, 2.9.0, 2.5.0
Build Dependencies:
r, r-r-oo, r-r-methodss3
Run Dependencies:
r, r-r-oo, r-r-methodss3
Description:
Various Programming Utilities. Utility functions useful when programming and developing R packages.

r-r6

Homepage:
Spack package:
Versions:
2.5.1, 2.5.0, 2.4.0, 2.2.2, 2.2.0, 2.1.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Encapsulated Classes with Reference Semantics. The R6 package allows the creation of classes with reference semantics, similar to R's built-in reference classes. Compared to reference classes, R6 classes are simpler and lighter-weight, and they are not built on S4 classes so they do not require the methods package. These classes allow public and private members, and they support inheritance, even when the classes are defined in different packages.

r-rainbow

Homepage:
Spack package:
Versions:
3.6
Build Dependencies:
r, r-pcapp, r-mass, r-hdrcde, r-cluster, r-colorspace, r-ks
Run Dependencies:
r, r-pcapp, r-mass, r-hdrcde, r-cluster, r-colorspace, r-ks
Description:
Bagplots, Boxplots and Rainbow Plots for Functional Data. Visualizing functional data and identifying functional outliers.

r-randomfields

Homepage:
Spack package:
Versions:
3.3.14, 3.3.13, 3.3.8, 3.3.6, 3.3.4, 3.1.50
Build Dependencies:
r, r-sp, r-randomfieldsutils
Run Dependencies:
r, r-sp, r-randomfieldsutils
Description:
Simulation and Analysis of Random Fields. Methods for the inference on and the simulation of Gaussian fields are provided. Furthermore, methods for the simulation of extreme value random fields are provided. Main geostatistical parts are based among others on the books by Christian Lantuejoul <doi:10.1007/978-3-662-04808-5>.

r-randomfieldsutils

Homepage:
Spack package:
Versions:
1.1.0, 0.5.6, 0.5.3, 0.5.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Utilities for the Simulation and Analysis of Random Fields and Genetic Data. Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used.

r-randomforest

Homepage:
Spack package:
Versions:
4.6-14, 4.6-12
Build Dependencies:
r
Run Dependencies:
r
Description:
Breiman and Cutler's Random Forests for Classification and Regression. Classification and regression based on a forest of trees using random inputs.

r-randomglm

Homepage:
Spack package:
Versions:
1.02-1
Build Dependencies:
r, r-mass, r-foreach, r-doparallel
Run Dependencies:
r, r-mass, r-foreach, r-doparallel
Description:
Random General Linear Model Prediction. The package implements a bagging predictor based on general linear models.

r-ranger

Homepage:
Spack package:
Versions:
0.13.1, 0.12.1, 0.11.2, 0.11.1, 0.8.0, 0.7.0, 0.6.0, 0.5.0, 0.4.0
Build Dependencies:
r, r-rcpp, r-matrix, r-rcppeigen
Run Dependencies:
r, r-rcpp, r-matrix, r-rcppeigen
Description:
A Fast Implementation of Random Forests. A fast implementation of Random Forests, particularly suited for high dimensional data. Ensembles of classification, regression, survival and probability prediction trees are supported. Data from genome-wide association studies can be analyzed efficiently. In addition to data frames, datasets of class 'gwaa.data' (R package 'GenABEL') and 'dgCMatrix' (R package 'Matrix') can be directly analyzed.

r-rann

Homepage:
Spack package:
Versions:
2.6.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Fast Nearest Neighbour Search (Wraps ANN Library) Using L2 Metric. Finds the k nearest neighbours for every point in a given dataset in O(N log N) time using Arya and Mount's ANN library (v1.1.3). There is support for approximate as well as exact searches, fixed radius searches and 'bd' as well as 'kd' trees. The distance is computed using the L2 (Euclidean) metric. Please see package 'RANN.L1' for the same functionality using the L1 (Manhattan, taxicab) metric.

r-rapidjsonr

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r, gmake
Run Dependencies:
r
Description:
'Rapidjson' C++ Header Files. Provides JSON parsing capability through the 'Rapidjson' 'C++' header-only library.

r-rapiserialize

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
R API Serialization. This package provides other packages with access to the internal R serialization code. Access to this code is provided at the C function level by using the registration of native function mechanism. Client packages simply include a single header file RApiSerializeAPI.h provided by this package. This packages builds on the Rhpc package by Junji Nakano and Ei-ji Nakama which also includes a (partial) copy of the file src/main/serialize.c from R itself. The R Core group is the original author of the serialization code made available by this package.

r-rappdirs

Homepage:
Spack package:
Versions:
0.3.3, 0.3.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Application Directories: Determine Where to Save Data, Caches, and Logs. An easy way to determine which directories on the users computer you should use to save data, caches and logs. A port of Python's 'Appdirs' (<https://github.com/ActiveState/appdirs>) to R.

r-raster

Homepage:
Spack package:
Versions:
3.5-15, 3.5-11, 3.4-5, 2.9-23, 2.9-22, 2.5-8
Build Dependencies:
r, r-sp, r-rcpp, r-terra
Run Dependencies:
r, r-sp, r-rcpp, r-terra
Description:
Geographic Data Analysis and Modeling. Reading, writing, manipulating, analyzing and modeling of spatial data. The package implements basic and high-level functions for raster data and for vector data operations such as intersections. See the manual and tutorials on <https://rspatial.org/> to get started.

r-rbgl

Homepage:
Spack package:
Versions:
1.70.0, 1.66.0, 1.60.0, 1.58.2, 1.56.0, 1.54.0, 1.52.0
Build Dependencies:
r, r-graph, r-bh
Run Dependencies:
r, r-graph, r-bh
Description:
An interface to the BOOST graph library. A fairly extensive and comprehensive interface to the graph algorithms contained in the BOOST library.

r-rbibutils

Homepage:
Spack package:
Versions:
2.2.7, 2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Convert Between Bibliography Formats. Converts between a number of bibliography formats, including 'BibTeX', 'BibLaTeX' and 'Bibentry'. Includes a port of the 'bibutils' utilities by Chris Putnam <https://sourceforge.net/projects/bibutils/>. Supports all bibliography formats and character encodings implemented in 'bibutils'.

r-rbokeh

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1, 0.5.0
Build Dependencies:
r, r-htmlwidgets, r-maps, r-jsonlite, r-digest, r-hexbin, r-lazyeval, r-pryr, r-magrittr, r-scales, r-gistr, r-ggplot2
Run Dependencies:
r, r-htmlwidgets, r-maps, r-jsonlite, r-digest, r-hexbin, r-lazyeval, r-pryr, r-magrittr, r-scales, r-gistr, r-ggplot2
Description:
R Interface for Bokeh. A native R plotting library that provides a flexible declarative interface for creating interactive web-based graphics, backed by the Bokeh visualization library <https://bokeh.pydata.org/>.

r-rcmdcheck

Homepage:
Spack package:
Versions:
1.4.0, 1.3.3
Build Dependencies:
r, r-callr, r-cli, r-curl, r-desc, r-digest, r-pkgbuild, r-prettyunits, r-r6, r-rprojroot, r-sessioninfo, r-withr, r-xopen, r-crayon
Run Dependencies:
r, r-callr, r-cli, r-curl, r-desc, r-digest, r-pkgbuild, r-prettyunits, r-r6, r-rprojroot, r-sessioninfo, r-withr, r-xopen, r-crayon
Description:
Run 'R CMD check' from 'R' and Capture Results. Run 'R CMD check' from 'R' and capture the results of the individual checks. Supports running checks in the background, timeouts, pretty printing and comparing check results.

r-rcolorbrewer

Homepage:
Spack package:
Versions:
1.1-2
Build Dependencies:
r
Run Dependencies:
r
Description:
ColorBrewer Palettes. Provides color schemes for maps (and other graphics) designed by Cynthia Brewer as described at https://colorbrewer2.org/

r-rcpp

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6, 1.0.4.6, 1.0.2, 1.0.0, 0.12.19, 0.12.18, 0.12.17, 0.12.16, 0.12.15, 0.12.14, 0.12.13, 0.12.12, 0.12.11, 0.12.9, 0.12.6, 0.12.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Seamless R and C++ Integration. The 'Rcpp' package provides R functions as well as C++ classes which; offer a seamless integration of R and C++. Many R data types and objects can be; mapped back and forth to C++ equivalents which facilitates both writing of new; code as well as easier integration of third-party libraries. Documentation; about 'Rcpp' is provided by several vignettes included in this package, via the; 'Rcpp Gallery' site at <https://gallery.rcpp.org>, the paper by Eddelbuettel and; Francois (2011, <doi:10.18637/jss.v040.i08>), the book by Eddelbuettel (2013,; <doi:10.1007/978-1-4614-6868-4>) and the paper by Eddelbuettel and Balamuta (2018,; <doi:10.1080/00031305.2017.1375990>); see 'citation("Rcpp")' for details.

r-rcppannoy

Homepage:
Spack package:
Versions:
0.0.19, 0.0.18, 0.0.12
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Bindings for 'Annoy', a Library for Approximate Nearest Neighbors. 'Annoy' is a small C++ library for Approximate Nearest Neighbors written for efficient memory usage as well an ability to load from / save to disk. This package provides an R interface by relying on the 'Rcpp' package, exposing the same interface as the original Python wrapper to 'Annoy'. See <https://github.com/spotify/annoy> for more on 'Annoy'. 'Annoy' is released under Version 2.0 of the Apache License. Also included is a small Windows port of 'mmap' which is released under the MIT license.

r-rcpparmadillo

Homepage:
Spack package:
Versions:
0.10.8.1.0, 0.10.7.5.0, 0.10.7.3.0, 0.10.1.2.2, 0.9.600.4.0, 0.9.400.3.0, 0.8.100.1.0
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library. 'Armadillo' is a templated C++ linear algebra library (by Conrad; Sanderson) that aims towards a good balance between speed and ease of; use. Integer, floating point and complex numbers are supported, as; well as a subset of trigonometric and statistics functions. Various; matrix decompositions are provided through optional integration with; LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the; header files from the templated 'Armadillo' library. Thus users do; not need to install 'Armadillo' itself in order to use; 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed; under Apache License 2; previous releases were under licensed as MPL; 2.0 from version 3.800.0 onwards and LGPL-3 prior to that

r-rcppblaze

Homepage:
Spack package:
Versions:
0.2.2
Build Dependencies:
r, r-rcpp, r-matrix, r-bh
Run Dependencies:
r, r-rcpp, r-matrix, r-bh
Description:
'Blaze' is an open-source, high-performance C++ math library for dense and sparse arithmetic. With its state-of-the-art Smart Expression Template implementation 'Blaze' combines the elegance and ease of use of a domain-specific language with 'HPC'-grade performance, making it one of the most intuitive and fastest C++ math libraries available. The 'Blaze' library offers: - high performance through the integration of 'BLAS' libraries and manually tuned 'HPC' math kernels - vectorization by 'SSE', 'SSE2', 'SSE3', 'SSSE3', 'SSE4', 'AVX', 'AVX2', 'AVX-512', 'FMA', and 'SVML' - parallel execution by 'OpenMP', C++11 threads and 'Boost' threads ('Boost' threads are disabled in 'RcppBlaze') - the intuitive and easy to use API of a domain specific language - unified arithmetic with dense and sparse vectors and matrices - thoroughly tested matrix and vector arithmetic - completely portable, high quality C++ source code. The 'RcppBlaze' package includes the header files from the 'Blaze' library with disabling some functionalities related to link to the thread and system libraries which make 'RcppBlaze' be a header- only library. Therefore, users do not need to install 'Blaze' and the dependency 'Boost'. 'Blaze' is licensed under the New (Revised) BSD license, while 'RcppBlaze' (the 'Rcpp' bindings/bridge to 'Blaze') is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'. Note that since 'Blaze' has committed to 'C++14' commit to 'C++14' which does not used by most R users from version 3.0, we will use the version 2.6 of 'Blaze' which is 'C++98' compatible to support the most compilers and system.

r-rcppcctz

Homepage:
Spack package:
Versions:
0.2.10, 0.2.9, 0.2.6, 0.2.4, 0.2.3
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Bindings for the 'CCTZ' Library. 'Rcpp' Access to the 'CCTZ' timezone library is provided. 'CCTZ' is a C++ library for translating between absolute and civil times using the rules of a time zone. The 'CCTZ' source code, released under the Apache 2.0 License, is included in this package. See <https://github.com/google/cctz> for more details.

r-rcppcnpy

Homepage:
Spack package:
Versions:
0.2.10, 0.2.9
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Read-Write Support for 'NumPy' Files via 'Rcpp'. The 'cnpy' library written by Carl Rogers provides read and write facilities for files created with (or for) the 'NumPy' extension for 'Python'. Vectors and matrices of numeric types can be read or written to and from files as well as compressed files. Support for integer files is available if the package has been built with -std=c++11 which should be the default on all platforms since the release of R 3.3.0.

r-rcppdate

Homepage:
Spack package:
Versions:
0.0.3, 0.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
'date' C++ Header Library for Date and Time Functionality. 'date' is a C++ header library offering extensive date and time functionality for the C++11, C++14 and C++17 standards written by Howard Hinnant and released under the MIT license. A slightly modified version has been accepted (along with 'tz.h') as part of C++20. This package regroups all header files from the upstream repository by Howard Hinnant so that other R packages can use them in their C++ code. At present, few of the types have explicit 'Rcpp' wrapper though these may be added as needed.

r-rcppde

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
r, r-rcpp, r-rcpparmadillo
Run Dependencies:
r, r-rcpp, r-rcpparmadillo
Description:
Global Optimization by Differential Evolution in C++. An efficient C++ based implementation of the 'DEoptim' function which performs global optimization by differential evolution. Its creation was motivated by trying to see if the old approximation "easier, shorter, faster: pick any two" could in fact be extended to achieving all three goals while moving the code from plain old C to modern C++. The initial version did in fact do so, but a good part of the gain was due to an implicit code review which eliminated a few inefficiencies which have since been eliminated in 'DEoptim'.

r-rcppeigen

Homepage:
Spack package:
Versions:
0.3.3.9.1, 0.3.3.5.0, 0.3.3.4.0, 0.3.3.3.1, 0.3.2.9.0, 0.3.2.8.1
Build Dependencies:
r, r-matrix, r-rcpp
Run Dependencies:
r, r-matrix, r-rcpp
Description:
'Rcpp' Integration for the 'Eigen' Templated Linear Algebra Library. R and 'Eigen' integration using 'Rcpp'. 'Eigen' is a C++ template library for linear algebra: matrices, vectors, numerical solvers and related algorithms. It supports dense and sparse matrices on integer, floating point and complex numbers, decompositions of such matrices, and solutions of linear systems. Its performance on many algorithms is comparable with some of the best implementations based on 'Lapack' and level-3 'BLAS'. The 'RcppEigen' package includes the header files from the 'Eigen' C++ template library (currently version 3.2.8). Thus users do not need to install 'Eigen' itself in order to use 'RcppEigen'. Since version 3.1.1, 'Eigen' is licensed under the Mozilla Public License (version 2); earlier version were licensed under the GNU LGPL version 3 or later. 'RcppEigen' (the 'Rcpp' bindings/bridge to 'Eigen') is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.

r-rcppgsl

Homepage:
Spack package:
Versions:
0.3.10
Build Dependencies:
r, r-rcpp, gsl
Link Dependencies:
gsl
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Integration for 'GNU GSL' Vectors and Matrices. 'Rcpp' integration for 'GNU GSL' vectors and matrices The 'GNU Scientific Library' (or 'GSL') is a collection of numerical routines for scientific computing. It is particularly useful for C and C++ programs as it provides a standard C interface to a wide range of mathematical routines. There are over 1000 functions in total with an extensive test suite. The 'RcppGSL' package provides an easy-to-use interface between 'GSL' data structures and R using concepts from 'Rcpp' which is itself a package that eases the interfaces between R and C++. This package also serves as a prime example of how to build a package that uses 'Rcpp' to connect to another third-party library. The 'autoconf' script, 'inline' plugin and example package can all be used as a stanza to write a similar package against another library.

r-rcpphnsw

Homepage:
Spack package:
Versions:
0.3.0, 0.1.0
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Bindings for 'hnswlib', a Library for Approximate NearestNeighbors. 'Hnswlib' is a C++ library for Approximate Nearest Neighbors. This ; package provides a minimal R interface by relying on the 'Rcpp' package. See ; <https://github.com/nmslib/hnswlib> for more on 'hnswlib'. 'hnswlib' is ; released under Version 2.0 of the Apache License.

r-rcppparallel

Homepage:
Spack package:
Versions:
5.1.5, 5.0.2, 4.4.3
Build Dependencies:
r, gmake, tbb
Link Dependencies:
tbb
Run Dependencies:
r
Description:
Parallel Programming Tools for 'Rcpp'. High level functions for parallel programming with 'Rcpp'. For example, the 'parallelFor()' function can be used to convert the work of a standard serial "for" loop into a parallel one and the 'parallelReduce()' function can be used for accumulating aggregate or other values.

r-rcppprogress

Homepage:
Spack package:
Versions:
0.4.2, 0.4.1, 0.4, 0.3, 0.2.1, 0.2, 0.1
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
An Interruptible Progress Bar with OpenMP Support for C++ in R Packages. Allows to display a progress bar in the R console for long running computations taking place in c++ code, and support for interrupting those computations even in multithreaded code, typically using OpenMP.

r-rcpptoml

Homepage:
Spack package:
Versions:
0.1.7
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Rcpp' Bindings to Parser for Tom's Obvious Markup Language. The configuration format defined by 'TOML' (which expands to "Tom's Obvious Markup Language") specifies an excellent format (described at <https://toml.io/en/>) suitable for both human editing as well as the common uses of a machine-readable format. This package uses 'Rcpp' to connect the 'cpptoml' parser written by Chase Geigle (in C++11) to R.

r-rcppziggurat

Homepage:
Spack package:
Versions:
0.1.6
Build Dependencies:
r, r-rcpp, r-rcppgsl, gsl
Link Dependencies:
gsl
Run Dependencies:
r, r-rcpp, r-rcppgsl
Description:
'Rcpp' Integration of Different "Ziggurat" Normal RNG Implementations. The Ziggurat generator for normally distributed random numbers, originally proposed by Marsaglia and Tsang (2000, <doi:10.18637/jss.v005.i08>) has been improved upon a few times starting with Leong et al (2005, <doi:10.18637/jss.v012.i07>). This package provides an aggregation in order to compare different implementations in order to provide an 'faster but good enough' alternative for use with R and C++ code.

r-rcurl

Homepage:
Spack package:
Versions:
1.98-1.6, 1.98-1.5, 1.98-1.2, 1.95-4.12, 1.95-4.8
Build Dependencies:
r, r-bitops, curl, gmake
Link Dependencies:
curl
Run Dependencies:
r, r-bitops
Description:
General Network (HTTP/FTP/...) Client Interface for R. A wrapper for 'libcurl' <http://curl.haxx.se/libcurl/> Provides functions to allow one to compose general HTTP requests and provides convenient functions to fetch URIs, get & post forms, etc. and process the results returned by the Web server. This provides a great deal of control over the HTTP/FTP/... connection and the form of the request while providing a higher-level interface than is available just using R socket connections. Additionally, the underlying implementation is robust and extensive, supporting FTP/FTPS/TFTP (uploads and downloads), SSL/HTTPS, telnet, dict, ldap, and also supports cookies, redirects, authentication, etc.

r-rda

Homepage:
Spack package:
Versions:
1.0.2-2.1, 1.0.2-2, 1.0.2-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Shrunken Centroids Regularized Discriminant Analysis. Shrunken Centroids Regularized Discriminant Analysis for the classification purpose in high dimensional data.

r-rdpack

Homepage:
Spack package:
Versions:
2.1.3, 2.1, 0.11-0
Build Dependencies:
r, r-rbibutils, r-bibtex, r-gbrd
Run Dependencies:
r, r-rbibutils, r-bibtex, r-gbrd
Description:
Update and Manipulate Rd Documentation Objects. Functions for manipulation of R documentation objects, including functions reprompt() and ereprompt() for updating 'Rd' documentation for functions, methods and classes; 'Rd' macros for citations and import of references from 'bibtex' files for use in 'Rd' files and 'roxygen2' comments; 'Rd' macros for evaluating and inserting snippets of 'R' code and the results of its evaluation or creating graphics on the fly; and many functions for manipulation of references and Rd files.

r-readbitmap

Homepage:
Spack package:
Versions:
0.1.5
Build Dependencies:
r, r-bmp, r-jpeg, r-png, r-tiff, jpeg, libpng
Link Dependencies:
jpeg, libpng
Run Dependencies:
r, r-bmp, r-jpeg, r-png, r-tiff
Description:
Simple Unified Interface to Read Bitmap Images (BMP,JPEG,PNG,TIFF). Identifies and reads Windows BMP, JPEG, PNG, and TIFF format bitmap images. Identification defaults to the use of the magic number embedded in the file rather than the file extension. Reading of JPEG and PNG image depends on libjpg and libpng libraries. See file INSTALL for details if necessary.

r-readr

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1, 2.0.2, 1.4.0, 1.3.1, 1.1.1
Build Dependencies:
r, r-cli, r-clipr, r-crayon, r-hms, r-lifecycle, r-r6, r-rlang, r-tibble, r-vroom, r-cpp11, r-tzdb, r-bh, r-rcpp
Run Dependencies:
r, r-cli, r-clipr, r-crayon, r-hms, r-lifecycle, r-r6, r-rlang, r-tibble, r-vroom, r-cpp11, r-tzdb, r-bh, r-rcpp
Description:
Read Rectangular Text Data. The goal of 'readr' is to provide a fast and friendly way to read rectangular data (like 'csv', 'tsv', and 'fwf'). It is designed to flexibly parse many types of data found in the wild, while still cleanly failing when data unexpectedly changes.

r-readxl

Homepage:
Spack package:
Versions:
1.3.1, 1.3.0, 1.1.0, 1.0.0
Build Dependencies:
r, r-tibble, r-rcpp, r-cellranger, r-progress
Run Dependencies:
r, r-tibble, r-rcpp, r-cellranger, r-progress
Description:
Read Excel Files. Import excel files into R. Supports '.xls' via the embedded 'libxls' C library <https://sourceforge.net/projects/libxls/> and '.xlsx' via the embedded 'RapidXML' C++ library <https://rapidxml.sourceforge.net>. Works on Windows, Mac and Linux without external dependencies.

r-reams

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
r, r-leaps, r-mgcv
Run Dependencies:
r, r-leaps, r-mgcv
Description:
Resampling-Based Adaptive Model Selection. Resampling methods for adaptive linear model selection. These can be thought of as extensions of the Akaike information criterion that account for searching among candidate models.

r-recipes

Homepage:
Spack package:
Versions:
0.2.0, 0.1.17, 0.1.15, 0.1.6
Build Dependencies:
r, r-dplyr, r-ellipsis, r-generics, r-glue, r-gower, r-hardhat, r-ipred, r-lifecycle, r-lubridate, r-magrittr, r-matrix, r-purrr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-timedate, r-vctrs, r-withr
Run Dependencies:
r, r-dplyr, r-ellipsis, r-generics, r-glue, r-gower, r-hardhat, r-ipred, r-lifecycle, r-lubridate, r-magrittr, r-matrix, r-purrr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-timedate, r-vctrs, r-withr
Description:
Preprocessing Tools to Create Design Matrices. An extensible framework to create and preprocess design matrices. Recipes consist of one or more data manipulation and analysis "steps". Statistical parameters for the steps can be estimated from an initial data set and then applied to other data sets. The resulting design matrices can then be used as inputs into statistical or machine learning models.

r-registry

Homepage:
Spack package:
Versions:
0.5-1, 0.5, 0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Infrastructure for R Package Registries. Provides a generic infrastructure for creating and using registries.

r-rematch

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Match Regular Expressions with a Nicer 'API'. A small wrapper on 'regexpr' to extract the matches and captured groups from the match of a regular expression to a character vector.

r-rematch2

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1, 2.1.0, 2.0.1
Build Dependencies:
r, r-tibble
Link Dependencies:
r-tibble
Run Dependencies:
r
Description:
Tidy Output from Regular Expression Matching. Wrappers on 'regexpr' and 'gregexpr' to return the match results in tidy data frames.

r-remotes

Homepage:
Spack package:
Versions:
2.4.2, 2.2.0, 2.1.1, 2.1.0
Build Dependencies:
r
Run Dependencies:
r, subversion, git
Description:
R Package Installation from Remote Repositories, Including 'GitHub'. Download and install R packages stored in 'GitHub', 'BitBucket', or plain 'subversion' or 'git' repositories. This package provides the 'install_*' functions in 'devtools'. Indeed most of the code was copied over from 'devtools'.

r-renv

Homepage:
Spack package:
Versions:
0.15.2, 0.15.1, 0.13.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Project Environments for R packages. A dependency management toolkit for R. Using 'renv', you can create and manage project-local R libraries, save the state of these libraries to a 'lockfile', and later restore your library as required. Together, these tools can help make your projects more isolated, portable, and reproducible.

r-reordercluster

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
r, r-gplots, r-rcpp
Run Dependencies:
r, r-gplots, r-rcpp
Description:
Reordering the dendrogram according to the class labels. Tools for performing the leaf reordering for the dendrogram that preserves the hierarchical clustering result and at the same time tries to group instances from the same class together.

r-reportingtools

Homepage:
Spack package:
Versions:
2.34.0, 2.30.0, 2.24.0, 2.22.1, 2.20.0, 2.17.3, 2.16.0
Build Dependencies:
r, r-knitr, r-biobase, r-hwriter, r-category, r-gostats, r-limma, r-lattice, r-annotationdbi, r-edger, r-annotate, r-pfam-db, r-gseabase, r-biocgenerics, r-xml, r-r-utils, r-deseq2, r-ggplot2, r-ggbio, r-iranges
Run Dependencies:
r, r-knitr, r-biobase, r-hwriter, r-category, r-gostats, r-limma, r-lattice, r-annotationdbi, r-edger, r-annotate, r-pfam-db, r-gseabase, r-biocgenerics, r-xml, r-r-utils, r-deseq2, r-ggplot2, r-ggbio, r-iranges
Description:
Tools for making reports in various formats. The ReportingTools software package enables users to easily display reports of analysis results generated from sources such as microarray and sequencing data. The package allows users to create HTML pages that may be viewed on a web browser such as Safari, or in other formats readable by programs such as Excel. Users can generate tables with sortable and filterable columns, make and display plots, and link table entries to other data sources such as NCBI or larger plots within the HTML page. Using the package, users can also produce a table of contents page to link various reports together for a particular project that can be viewed in a web browser. For more examples, please visit our site: http:// research- pub.gene.com/ReportingTools.

r-repr

Homepage:
Spack package:
Versions:
1.1.4, 1.1.0, 1.0.1, 1.0.0, 0.9
Build Dependencies:
r, r-htmltools, r-jsonlite, r-pillar, r-base64enc
Run Dependencies:
r, r-htmltools, r-jsonlite, r-pillar, r-base64enc
Description:
Serializable Representations. String and binary representations of objects for several formats and mime types.

r-reprex

Homepage:
Spack package:
Versions:
2.0.1, 0.3.0, 0.2.1, 0.1.1
Build Dependencies:
r, r-callr, r-cli, r-clipr, r-fs, r-glue, r-knitr, r-rlang, r-rmarkdown, r-rstudioapi, r-withr, pandoc, r-whisker
Link Dependencies:
pandoc
Run Dependencies:
r, r-callr, r-cli, r-clipr, r-fs, r-glue, r-knitr, r-rlang, r-rmarkdown, r-rstudioapi, r-withr, r-whisker
Description:
Prepare Reproducible Example Code via the Clipboard. Convenience wrapper that uses the 'rmarkdown' package to render small snippets of code to target formats that include both code and output. The goal is to encourage the sharing of small, reproducible, and runnable examples on code-oriented websites, such as <https://stackoverflow.com/> and <https://github.com>, or in email. 'reprex' also extracts clean, runnable R code from various common formats, such as copy/paste from an R session.

r-reproducible

Homepage:
Spack package:
Versions:
1.2.8, 1.2.4
Build Dependencies:
r, r-data-table, r-dbi, r-digest, r-fpcompare, r-gdalutilities, r-glue, r-magrittr, r-require, r-raster, r-rsqlite, r-rlang, r-sp, unrar
Run Dependencies:
r, r-data-table, r-dbi, r-digest, r-fpcompare, r-gdalutilities, r-glue, r-magrittr, r-require, r-raster, r-rsqlite, r-rlang, r-sp, unrar
Description:
A Set of Tools that Enhance Reproducibility Beyond Package Management. Collection of high-level, machine- and OS-independent tools for making deeply reproducible and reusable content in R. The two workhorse functions are Cache and prepInputs; these allow for: nested caching, robust to environments, and objects with environments (like functions); and data retrieval and processing in continuous workflow environments. In all cases, efforts are made to make the first and subsequent calls of functions have the same result, but vastly faster at subsequent times by way of checksums and digesting. Several features are still under active development, including cloud storage of cached objects, allowing for sharing between users. Several advanced options are available, see ?reproducibleOptions.

r-require

Homepage:
Spack package:
Versions:
0.0.13, 0.0.10
Build Dependencies:
r, r-data-table, r-remotes
Run Dependencies:
r, r-data-table, r-remotes
Description:
Installing and Loading R Packages for Reproducible Workflows. A single key function, 'Require' that wraps 'install.packages', 'remotes::install_github', 'versions::install.versions', and 'base::require' that allows for reproducible workflows. As with other functions in a reproducible workflow, this package emphasizes functions that return the same result whether it is the first or subsequent times running the function. Maturing.

r-reshape

Homepage:
Spack package:
Versions:
0.8.8, 0.8.7
Build Dependencies:
r, r-plyr
Run Dependencies:
r, r-plyr
Description:
Flexibly Reshape Data. Flexibly restructure and aggregate data using just two functions: melt and cast.

r-reshape2

Homepage:
Spack package:
Versions:
1.4.4, 1.4.3, 1.4.2, 1.4.1
Build Dependencies:
r, r-plyr, r-rcpp, r-stringr
Run Dependencies:
r, r-plyr, r-rcpp, r-stringr
Description:
Flexibly Reshape Data: A Reboot of the Reshape Package. Flexibly restructure and aggregate data using just two functions: melt and dcast (or acast).

r-restfulr

Homepage:
Spack package:
Versions:
0.0.13
Build Dependencies:
r, r-xml, r-rcurl, r-rjson, r-s4vectors, r-yaml
Run Dependencies:
r, r-xml, r-rcurl, r-rjson, r-s4vectors, r-yaml
Description:
R Interface to RESTful Web Services. Models a RESTful service as if it were a nested R list.

r-reticulate

Homepage:
Spack package:
Versions:
1.24, 1.23, 1.18, 1.15, 1.13
Build Dependencies:
r, r-matrix, r-rcpp, r-rcpptoml, r-here, r-jsonlite, r-png, r-rappdirs, r-withr, python
Link Dependencies:
r-rcpp, r-rcpptoml, r-here, r-png, r-withr
Run Dependencies:
r, r-matrix, r-rcpp, r-rcpptoml, r-here, r-jsonlite, r-png, r-rappdirs, r-withr, python
Description:
Interface to 'Python'. Interface to 'Python' modules, classes, and functions. When calling into 'Python', R data types are automatically converted to their equivalent 'Python' types. When values are returned from 'Python' to R they are converted back to R types. Compatible with all versions of 'Python' >= 2.7.

r-rex

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.1.2
Build Dependencies:
r, r-lazyeval, r-magrittr
Run Dependencies:
r, r-lazyeval, r-magrittr
Description:
Friendly Regular Expressions. A friendly interface for the construction of regular expressions.

r-rfast

Homepage:
Spack package:
Versions:
2.0.4
Build Dependencies:
r, r-rcpp, r-rcppziggurat, r-rcpparmadillo
Run Dependencies:
r, r-rcpp, r-rcppziggurat, r-rcpparmadillo
Description:
A Collection of Efficient and Extremely Fast R Functions. A collection of fast (utility) functions for data analysis. Column- and row- wise means, medians, variances, minimums, maximums, many t, F and G-square tests, many regressions (normal, logistic, Poisson), are some of the many fast functions. References: a) Tsagris M., Papadakis M. (2018). Taking R to its limits: 70+ tips. PeerJ Preprints 6:e26605v1 <doi:10.7287/peerj.preprints.26605v1>. b) Tsagris M. and Papadakis M. (2018). Forward regression in R: from the extreme slow to the extreme fast. Journal of Data Science, 16(4): 771-780. <doi:10.6339/JDS.201810_16(4).00006>.

r-rferns

Homepage:
Spack package:
Versions:
5.0.0, 4.0.0, 3.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Random Ferns Classifier. Provides the random ferns classifier by Ozuysal, Calonder, Lepetit and Fua (2009) <doi:10.1109/TPAMI.2009.23>, modified for generic and multi-label classification and featuring OOB error approximation and importance measure as introduced in Kursa (2014) <doi:10.18637/jss.v061.i10>.

r-rgdal

Homepage:
Spack package:
Versions:
1.5-28, 1.5-19, 1.5-18, 1.4-4, 1.3-9, 1.2-16
Build Dependencies:
r, r-sp, gdal, proj
Link Dependencies:
gdal, proj
Run Dependencies:
r, r-sp
Description:
Bindings for the 'Geospatial' Data Abstraction Library. Provides bindings to the 'Geospatial' Data Abstraction Library ('GDAL') (>= 1.11.4) and access to projection/transformation operations from the 'PROJ' library. Use is made of classes defined in the 'sp' package. Raster and vector map data can be imported into R, and raster and vector 'sp' objects exported. The 'GDAL' and 'PROJ' libraries are external to the package, and, when installing the package from source, must be correctly installed first; it is important that 'GDAL' < 3 be matched with 'PROJ' < 6. From 'rgdal' 1.5-8, installed with to 'GDAL' >=3, 'PROJ' >=6 and 'sp' >= 1.4, coordinate reference systems use 'WKT2_2019' strings, not 'PROJ' strings. 'Windows' and 'macOS' binaries (including 'GDAL', 'PROJ' and their dependencies) are provided on 'CRAN'.

r-rgenoud

Homepage:
Spack package:
Versions:
5.8-3.0, 5.8-2.0, 5.8-1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
R Version of GENetic Optimization Using Derivatives. A genetic algorithm plus derivative optimizer.

r-rgeos

Homepage:
Spack package:
Versions:
0.5-9, 0.5-5, 0.5-1, 0.3-26
Build Dependencies:
r, r-sp, geos
Link Dependencies:
geos
Run Dependencies:
r, r-sp
Description:
Interface to Geometry Engine - Open Source ('GEOS'). Interface to Geometry Engine - Open Source ('GEOS') using the C 'API' for topology operations on geometries. The 'GEOS' library is external to the package, and, when installing the package from source, must be correctly installed first. Windows and Mac Intel OS X binaries are provided on 'CRAN'. ('rgeos' >= 0.5-1): Up to and including 'GEOS' 3.7.1, topological operations succeeded with some invalid geometries for which the same operations fail from and including 'GEOS' 3.7.2. The 'checkValidity=' argument defaults and structure have been changed, from default FALSE to integer default '0L' for 'GEOS' < 3.7.2 (no check), '1L' 'GEOS' >= 3.7.2 (check and warn). A value of '2L' is also provided that may be used, assigned globally using 'set_RGEOS_CheckValidity(2L)', or locally using the 'checkValidity=2L' argument, to attempt zero-width buffer repair if invalid geometries are found. The previous default (FALSE, now '0L') is fastest and used for 'GEOS' < 3.7.2, but will not warn users of possible problems before the failure of topological operations that previously succeeded. From 'GEOS' 3.8.0, repair of geometries may also be attempted using 'gMakeValid()', which may, however, return a collection of geometries of different types.

r-rgexf

Homepage:
Spack package:
Versions:
0.16.2, 0.16.0, 0.15.3
Build Dependencies:
r, r-xml, r-igraph, r-servr, r-rook
Run Dependencies:
r, r-xml, r-igraph, r-servr, r-rook
Description:
Build, Import and Export GEXF Graph Files. Create, read and write GEXF (Graph Exchange XML Format) graph files (used in Gephi and others). Using the XML package, it allows the user to easily build/read graph files including attributes, GEXF viz attributes (such as color, size, and position), network dynamics (for both edges and nodes) and edge weighting. Users can build/handle graphs element-by-element or massively through data-frames, visualize the graph on a web browser through "sigmajs" (a javascript library) and interact with the igraph package.

r-rgl

Homepage:
Spack package:
Versions:
0.108.3, 0.104.16, 0.100.26, 0.100.24, 0.100.19, 0.99.16, 0.98.1
Build Dependencies:
r, r-htmlwidgets, r-htmltools, r-knitr, r-jsonlite, r-magrittr, r-r6, libx11, gl, glu, pandoc, r-shiny, r-crosstalk, r-manipulatewidget
Link Dependencies:
libx11, gl, glu, zlib, libpng, freetype
Run Dependencies:
r, r-htmlwidgets, r-htmltools, r-knitr, r-jsonlite, r-magrittr, r-r6, r-shiny, r-crosstalk, r-manipulatewidget
Description:
3D Visualization Using OpenGL. Provides medium to high level functions for 3D interactive graphics, including functions modelled on base graphics (plot3d(), etc.) as well as functions for constructing representations of geometric objects (cube3d(), etc.). Output may be on screen using OpenGL, or to various standard 3D file formats including WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.

r-rgooglemaps

Homepage:
Spack package:
Versions:
1.4.5.3, 1.4.3, 1.4.2, 1.2.0.7
Build Dependencies:
r, r-png, r-sp, r-rjsonio
Run Dependencies:
r, r-png, r-sp, r-rjsonio
Description:
Overlays on Static Maps. This package serves two purposes: (i) Provide a comfortable R interface to query the Google server for static maps, and (ii) Use the map as a background image to overlay plots within R. This requires proper coordinate scaling.

r-rgraphviz

Homepage:
Spack package:
Versions:
2.38.0, 2.34.0, 2.28.0, 2.26.0, 2.24.0, 2.22.0, 2.20.0
Build Dependencies:
r, r-graph
Run Dependencies:
r, r-graph, graphviz
Description:
Provides plotting capabilities for R graph objects. Interfaces R with the AT and T graphviz library for plotting R graph objects from the graph package.

r-rhdf5

Homepage:
Spack package:
Versions:
2.38.0, 2.34.0, 2.28.1, 2.26.2, 2.24.0, 2.22.0, 2.20.0
Build Dependencies:
r, r-rhdf5lib, r-rhdf5filters, gmake, r-zlibbioc
Run Dependencies:
r, r-rhdf5lib, r-rhdf5filters, r-zlibbioc
Description:
R Interface to HDF5. This package provides an interface between HDF5 and R. HDF5's main features are the ability to store and access very large and/or complex datasets and a wide variety of metadata on mass storage (disk) through a completely portable file format. The rhdf5 package is thus suited for the exchange of large and/or complex datasets between R and other software package, and for letting R applications work on datasets that are larger than the available RAM.

r-rhdf5filters

Homepage:
Spack package:
Versions:
1.6.0, 1.2.0
Build Dependencies:
r, r-rhdf5lib, gmake
Run Dependencies:
r, r-rhdf5lib
Description:
HDF5 Compression Filters. Provides a collection of compression filters for use with HDF5 datasets.

r-rhdf5lib

Homepage:
Spack package:
Versions:
1.16.0, 1.12.1, 1.6.3, 1.4.3, 1.2.1, 1.0.0
Build Dependencies:
r, gmake
Run Dependencies:
r
Description:
hdf5 library as an R package. Provides C and C++ hdf5 libraries.

r-rhmmer

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
r, r-magrittr, r-readr, r-dplyr, r-tidyr, r-rlang
Run Dependencies:
r, r-magrittr, r-readr, r-dplyr, r-tidyr, r-rlang
Description:
Utilities Parsing 'HMMER' Results. 'HMMER' is a profile hidden Markov model tool used primarily for sequence analysis in bioinformatics (<http://hmmer.org/>). 'rhmmer' provides utilities for parsing the 'HMMER' output into tidy data frames.

r-rhtslib

Homepage:
Spack package:
Versions:
1.26.0, 1.22.0, 1.18.1, 1.16.3, 1.14.1, 1.12.1, 1.10.0, 1.8.0
Build Dependencies:
r, r-zlibbioc, bzip2, xz, curl, gmake, patchelf
Link Dependencies:
bzip2, xz, curl
Run Dependencies:
r, r-zlibbioc, bzip2, xz, curl
Description:
HTSlib high-throughput sequencing library as an R package. This package provides version 1.7 of the 'HTSlib' C library for high- throughput sequence analysis. The package is primarily useful to developers of other R packages who wish to make use of HTSlib. Motivation and instructions for use of this package are in the vignette, vignette(package="Rhtslib", "Rhtslib").

r-rinside

Homepage:
Spack package:
Versions:
0.2.16, 0.2.15, 0.2.14, 0.2.13
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
C++ Classes to Embed R in C++ (and C) Applications. C++ classes to embed R in C++ applications The 'RInside' packages makes it easier to have "R inside" your C++ application by providing a C++ wrapperclass providing the R interpreter. As R itself is embedded into your application, a shared library build of R is required. This works on Linux, OS X and even on Windows provided you use the same tools used to build R itself. Numerous examples are provided in the eight subdirectories of the examples/ directory of the installed package: standard, mpi (for parallel computing) qt (showing how to embed 'RInside' inside a Qt GUI application), wt (showing how to build a "web-application" using the Wt toolkit), armadillo (for 'RInside' use with 'RcppArmadillo') and eigen (for 'RInside' use with 'RcppEigen'). The example use GNUmakefile(s) with GNU extensions, so a GNU make is required (and will use the GNUmakefile automatically). Doxygen-generated documentation of the C++ classes is available at the 'RInside' website as well.

r-rio

Homepage:
Spack package:
Versions:
0.5.29, 0.5.16
Build Dependencies:
r, r-foreign, r-haven, r-curl, r-data-table, r-readxl, r-openxlsx, r-tibble
Run Dependencies:
r, r-foreign, r-haven, r-curl, r-data-table, r-readxl, r-openxlsx, r-tibble
Description:
A Swiss-Army Knife for Data I/O. Streamlined data import and export by making assumptions that the user is probably willing to make: 'import()' and 'export()' determine the data structure from the file extension, reasonable defaults are used for data import and export (e.g., 'stringsAsFactors=FALSE'), web-based import is natively supported (including from SSL/HTTPS), compressed files can be read directly without explicit decompression, and fast import packages are used where appropriate. An additional convenience function, 'convert()', provides a simple method for converting between file types.

r-rjags

Homepage:
Spack package:
Versions:
4-12, 4-10, 4-8, 4-6
Build Dependencies:
r, r-coda
Link Dependencies:
jags
Run Dependencies:
r, r-coda
Description:
Bayesian Graphical Models using MCMC. Interface to the JAGS MCMC library.

r-rjava

Homepage:
Spack package:
Versions:
1.0-6, 0.9-13, 0.9-11, 0.9-8
Build Dependencies:
r, java, gmake, bzip2, icu4c, libiconv, pcre2, xz
Link Dependencies:
java, bzip2, icu4c, libiconv, pcre2, xz
Run Dependencies:
r
Description:
Low-Level R to Java Interface. Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.

r-rjson

Homepage:
Spack package:
Versions:
0.2.21, 0.2.20, 0.2.19, 0.2.15
Build Dependencies:
r
Run Dependencies:
r
Description:
JSON for R. Converts R object into JSON objects and vice-versa.

r-rjsonio

Homepage:
Spack package:
Versions:
1.3-1.6, 1.3-1.4, 1.3-1.2, 1.3-1.1, 1.3-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Serialize R Objects to JSON, JavaScript Object Notation. This is a package that allows conversion to and from data in Javascript object notation (JSON) format. This allows R objects to be inserted into Javascript/ECMAScript/ActionScript code and allows R programmers to read and convert JSON content to R objects. This is an alternative to rjson package. Originally, that was too slow for converting large R objects to JSON and was not extensible. rjson's performance is now similar to this package, and perhaps slightly faster in some cases. This package uses methods and is readily extensible by defining methods for different classes, vectorized operations, and C code and callbacks to R functions for deserializing JSON objects to R. The two packages intentionally share the same basic interface. This package (RJSONIO) has many additional options to allow customizing the generation and processing of JSON content. This package uses libjson rather than implementing yet another JSON parser. The aim is to support other general projects by building on their work, providing feedback and benefit from their ongoing development.

r-rlang

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0, 0.4.12, 0.4.10, 0.4.6, 0.4.0, 0.3.4, 0.3.1, 0.3.0.1, 0.3.0, 0.2.2, 0.1.4, 0.1.2, 0.1.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Base Types and Core R and 'Tidyverse' Features. A toolbox for working with base types, core R features like the condition system, and core 'Tidyverse' features like tidy evaluation.

r-rle

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Common Functions for Run-Length Encoded Vectors. Common 'base' and 'stats' methods for 'rle' objects, aiming to make it possible to treat them transparently as vectors.

r-rmariadb

Homepage:
Spack package:
Versions:
1.2.1, 1.1.0, 1.0.8
Build Dependencies:
r, r-bit64, r-blob, r-dbi, r-hms, r-lubridate, r-rcpp, r-rlang, r-plogr, mariadb-client, r-bh
Link Dependencies:
mariadb-client
Run Dependencies:
r, r-bit64, r-blob, r-dbi, r-hms, r-lubridate, r-rcpp, r-rlang, r-plogr, r-bh
Description:
Database Interface and 'MariaDB' Driver. Implements a 'DBI'-compliant interface to 'MariaDB' (<https://mariadb.org/>) and 'MySQL' (<https://www.mysql.com/>) databases.

r-rmarkdown

Homepage:
Spack package:
Versions:
2.11, 2.9, 2.6, 1.14, 1.13, 1.7, 1.0
Build Dependencies:
r, r-knitr, r-yaml, r-htmltools, r-evaluate, r-jsonlite, r-tinytex, r-xfun, r-jquerylib, r-stringr, r-rprojroot, r-mime, r-catools, r-base64enc, pandoc
Link Dependencies:
pandoc
Run Dependencies:
r, r-knitr, r-yaml, r-htmltools, r-evaluate, r-jsonlite, r-tinytex, r-xfun, r-jquerylib, r-stringr, r-rprojroot, r-mime, r-catools, r-base64enc
Description:
Dynamic Documents for R. Convert R Markdown documents into a variety of formats.

r-rminer

Homepage:
Spack package:
Versions:
1.4.6, 1.4.2
Build Dependencies:
r, r-plotrix, r-lattice, r-nnet, r-kknn, r-pls, r-mass, r-mda, r-rpart, r-randomforest, r-adabag, r-party, r-cubist, r-kernlab, r-e1071, r-glmnet, r-xgboost
Run Dependencies:
r, r-plotrix, r-lattice, r-nnet, r-kknn, r-pls, r-mass, r-mda, r-rpart, r-randomforest, r-adabag, r-party, r-cubist, r-kernlab, r-e1071, r-glmnet, r-xgboost
Description:
Data Mining Classification and Regression Methods. Facilitates the use of data mining algorithms in classification and regression (including time series forecasting) tasks by presenting a short and coherent set of functions. Versions: 1.4.6 / 1.4.5 / 1.4.4 new automated machine learning (AutoML) and ensembles, via improved fit(), mining() and mparheuristic() functions, and new categorical preprocessing, via improved delevels() function; 1.4.3 new metrics (e.g., macro precision, explained variance), new "lssvm" model and improved mparheuristic() function; 1.4.2 new "NMAE" metric, "xgboost" and "cv.glmnet" models (16 classification and 18 regression models); 1.4.1 new tutorial and more robust version; 1.4 - new classification and regression models, with a total of 14 classification and 15 regression methods, including: Decision Trees, Neural Networks, Support Vector Machines, Random Forests, Bagging and Boosting; 1.3 and 1.3.1 - new classification and regression metrics; 1.2 - new input importance methods via improved Importance() function; 1.0 - first version.

r-rmpfr

Homepage:
Spack package:
Versions:
0.8-7, 0.8-2, 0.7-2, 0.7-1, 0.6-1
Build Dependencies:
r, r-gmp, gmp, mpfr, texlive
Link Dependencies:
gmp, mpfr
Run Dependencies:
r, r-gmp
Description:
R MPFR - Multiple Precision Floating-Point Reliable. Arithmetic (via S4 classes and methods) for arbitrary precision floating point numbers, including transcendental ("special") functions. To this end, Rmpfr interfaces to the LGPL'ed MPFR (Multiple Precision Floating-Point Reliable) Library which itself is based on the GMP (GNU Multiple Precision) Library.

r-rmpi

Homepage:
Spack package:
Versions:
0.6-9.2, 0.6-9, 0.6-8, 0.6-6
Build Dependencies:
r, mpi
Link Dependencies:
mpi
Run Dependencies:
r
Description:
Interface (Wrapper) to MPI (Message-Passing Interface). An interface (wrapper) to MPI APIs. It also provides interactive R manager and worker environment.

r-rms

Homepage:
Spack package:
Versions:
6.2-0, 6.1-0, 5.1-4, 5.1-3.1, 5.1-3, 5.1-2, 5.1-1
Build Dependencies:
r, r-hmisc, r-survival, r-lattice, r-ggplot2, r-sparsem, r-quantreg, r-rpart, r-nlme, r-polspline, r-multcomp, r-htmltable, r-htmltools, r-mass, r-cluster, r-digest
Run Dependencies:
r, r-hmisc, r-survival, r-lattice, r-ggplot2, r-sparsem, r-quantreg, r-rpart, r-nlme, r-polspline, r-multcomp, r-htmltable, r-htmltools, r-mass, r-cluster, r-digest
Description:
Regression Modeling Strategies. Regression modeling, testing, estimation, validation, graphics, prediction, and typesetting by storing enhanced model design attributes in the fit. 'rms' is a collection of functions that assist with and streamline modeling. It also contains functions for binary and ordinal logistic regression models, ordinal models for continuous Y with a variety of distribution families, and the Buckley-James multiple regression model for right-censored responses, and implements penalized maximum likelihood estimation for logistic and ordinary linear models. 'rms' works with almost any regression model, but it was especially written to work with binary or ordinal regression models, Cox regression, accelerated failure time models, ordinary linear models, the Buckley-James model, generalized least squares for serially or spatially correlated observations, generalized linear models, and quantile regression.

r-rmutil

Homepage:
Spack package:
Versions:
1.1.5, 1.1.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Utilities for Nonlinear Regression and Repeated MeasurementsModels. A toolkit of functions for nonlinear regression and repeated measurements not to be used by itself but called by other Lindsey packages such as 'gnlm', 'stable', 'growth', 'repeated', and 'event' (available at <https://www.commanster.eu/rcode.html>).

r-rmysql

Homepage:
Spack package:
Versions:
0.10.23, 0.10.21, 0.10.17, 0.10.9
Build Dependencies:
r, r-dbi, mysql
Link Dependencies:
mysql
Run Dependencies:
r, r-dbi
Description:
Database Interface and 'MySQL' Driver for R. Legacy 'DBI' interface to 'MySQL' / 'MariaDB' based on old code ported from S-PLUS. A modern 'MySQL' client based on 'Rcpp' is available from the 'RMariaDB' package.

r-rnaseqmap

Homepage:
Spack package:
Versions:
2.48.0, 2.42.0, 2.40.1, 2.38.0, 2.36.0, 2.34.0
Build Dependencies:
r, r-biobase, r-rsamtools, r-genomicalignments, r-genomicranges, r-iranges, r-edger, r-deseq, r-dbi
Run Dependencies:
r, r-biobase, r-rsamtools, r-genomicalignments, r-genomicranges, r-iranges, r-edger, r-deseq, r-dbi
Description:
rnaSeq secondary analyses. The rnaSeqMap library provides classes and functions to analyze the RNA- sequencing data using the coverage profiles in multiple samples at a time

r-rncl

Homepage:
Spack package:
Versions:
0.8.4
Build Dependencies:
r, r-rcpp, r-progress
Run Dependencies:
r, r-rcpp, r-progress
Description:
An Interface to the Nexus Class Library. An interface to the Nexus Class Library which allows parsing of NEXUS, Newick and other phylogenetic tree file formats. It provides elements of the file that can be used to build phylogenetic objects such as ape's 'phylo' or phylobase's 'phylo4(d)'. This functionality is demonstrated with 'read_newick_phylo()' and 'read_nexus_phylo()'.

r-rnexml

Homepage:
Spack package:
Versions:
2.4.5
Build Dependencies:
r, r-ape, r-xml, r-plyr, r-reshape2, r-httr, r-uuid, r-dplyr, r-lazyeval, r-tidyr, r-stringr, r-stringi, r-xml2
Run Dependencies:
r, r-ape, r-xml, r-plyr, r-reshape2, r-httr, r-uuid, r-dplyr, r-lazyeval, r-tidyr, r-stringr, r-stringi, r-xml2
Description:
Semantically Rich I/O for the 'NeXML' Format. Provides access to phyloinformatic data in 'NeXML' format. The package should add new functionality to R such as the possibility to manipulate 'NeXML' objects in more various and refined way and compatibility with 'ape' objects.

r-rngtools

Homepage:
Spack package:
Versions:
1.5.2, 1.5, 1.4, 1.3.1.1, 1.3.1
Build Dependencies:
r, r-digest, r-pkgmaker, r-stringr
Run Dependencies:
r, r-digest, r-pkgmaker, r-stringr
Description:
Utility Functions for Working with Random Number Generators. Provides a set of functions for working with Random Number Generators (RNGs). In particular, a generic S4 framework is defined for getting/setting the current RNG, or RNG data that are embedded into objects for reproducibility. Notably, convenient default methods greatly facilitate the way current RNG settings can be changed.

r-rnoaa

Homepage:
Spack package:
Versions:
1.3.8, 1.3.0, 0.8.4
Build Dependencies:
r, r-crul, r-lubridate, r-dplyr, r-tidyr, r-tidyselect, r-ggplot2, r-scales, r-xml, r-xml2, r-jsonlite, r-gridextra, r-tibble, r-isdparser, r-geonames, r-hoardr, r-data-table, r-rappdirs
Run Dependencies:
r, r-crul, r-lubridate, r-dplyr, r-tidyr, r-tidyselect, r-ggplot2, r-scales, r-xml, r-xml2, r-jsonlite, r-gridextra, r-tibble, r-isdparser, r-geonames, r-hoardr, r-data-table, r-rappdirs
Description:
'NOAA' Weather Data from R. Client for many 'NOAA' data sources including the 'NCDC' climate 'API' at <https://www.ncdc.noaa.gov/cdo- web/webservices/v2>, with functions for each of the 'API' 'endpoints': data, data categories, data sets, data types, locations, location categories, and stations. In addition, we have an interface for 'NOAA' sea ice data, the 'NOAA' severe weather inventory, 'NOAA' Historical Observing 'Metadata' Repository ('HOMR') data, 'NOAA' storm data via 'IBTrACS', tornado data via the 'NOAA' storm prediction center, and more.

r-robust

Homepage:
Spack package:
Versions:
0.6-1, 0.5-0.0, 0.4-18.1, 0.4-18
Build Dependencies:
r, r-fit-models, r-lattice, r-mass, r-robustbase, r-rrcov
Run Dependencies:
r, r-fit-models, r-lattice, r-mass, r-robustbase, r-rrcov
Description:
Port of the S+ Robust Library. Methods for robust statistics, a state of the art in the early 2000s, notably for robust regression and robust multivariate analysis.

r-robustbase

Homepage:
Spack package:
Versions:
0.93-9, 0.93-7, 0.93-5, 0.93-4, 0.92-7
Build Dependencies:
r, r-deoptimr
Run Dependencies:
r, r-deoptimr
Description:
Basic Robust Statistics. "Essential" Robust Statistics. Tools allowing to analyze data with robust methods. This includes regression methodology including model selections and multivariate statistics where we strive to cover the book "Robust Statistics, Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.

r-roc

Homepage:
Spack package:
Versions:
1.70.0, 1.66.0, 1.62.0
Build Dependencies:
r, r-knitr
Run Dependencies:
r, r-knitr
Description:
utilities for ROC, with microarray focus. Provide utilities for ROC, with microarray focus.

r-rocr

Homepage:
Spack package:
Versions:
1.0-11, 1.0-7
Build Dependencies:
r, r-gplots
Run Dependencies:
r, r-gplots
Description:
Visualizing the Performance of Scoring Classifiers. ROC graphs, sensitivity/specificity curves, lift charts, and precision/recall plots are popular examples of trade-off visualizations for specific pairs of performance measures. ROCR is a flexible tool for creating cutoff- parameterized 2D performance curves by freely combining two from over 25 performance measures (new performance measures can be added using a standard interface). Curves from different cross-validation or bootstrapping runs can be averaged by different methods, and standard deviations, standard errors or box plots can be used to visualize the variability across the runs. The parameterization can be visualized by printing cutoff values at the corresponding curve positions, or by coloring the curve according to cutoff. All components of a performance plot can be quickly adjusted using a flexible parameter dispatching mechanism. Despite its flexibility, ROCR is easy to use, with only three commands and reasonable default values for all optional parameters.

r-rodbc

Homepage:
Spack package:
Versions:
1.3-19, 1.3-17, 1.3-15, 1.3-13
Build Dependencies:
r, unixodbc
Link Dependencies:
unixodbc
Run Dependencies:
r
Description:
ODBC Database Access. An ODBC database interface.

r-rook

Homepage:
Spack package:
Versions:
1.1-1
Build Dependencies:
r, r-brew
Run Dependencies:
r, r-brew
Description:
Rook - a web server interface for R. This package contains the Rook specification and convenience software for building and running Rook applications. To get started, be sure and read the 'Rook' help file first.

r-rots

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0, 1.12.0, 1.10.1, 1.8.0, 1.6.0, 1.4.0
Build Dependencies:
r, r-rcpp, r-biobase
Run Dependencies:
r, r-rcpp, r-biobase
Description:
Reproducibility-Optimized Test Statistic. Calculates the Reproducibility-Optimized Test Statistic (ROTS) for differential testing in omics data.

r-roxygen2

Homepage:
Spack package:
Versions:
7.1.2, 7.1.1, 7.1.0, 6.1.1, 5.0.1
Build Dependencies:
r, r-brew, r-commonmark, r-desc, r-digest, r-knitr, r-pkgload, r-purrr, r-r6, r-rlang, r-stringi, r-stringr, r-xml2, r-cpp11, r-rcpp
Run Dependencies:
r, r-brew, r-commonmark, r-desc, r-digest, r-knitr, r-pkgload, r-purrr, r-r6, r-rlang, r-stringi, r-stringr, r-xml2, r-cpp11, r-rcpp
Description:
In-Line Documentation for R. Generate your Rd documentation, 'NAMESPACE' file, and collation field using specially formatted comments. Writing documentation in-line with code makes it easier to keep your documentation up-to-date as your requirements change. 'Roxygen2' is inspired by the 'Doxygen' system for C++.

r-rpart

Homepage:
Spack package:
Versions:
4.1.16, 4.1-15, 4.1-13, 4.1-11, 4.1-10
Build Dependencies:
r
Run Dependencies:
r
Description:
Recursive Partitioning and Regression Trees. Recursive partitioning for classification, regression and survival trees. An implementation of most of the functionality of the 1984 book by Breiman, Friedman, Olshen and Stone.

r-rpart-plot

Homepage:
Spack package:
Versions:
3.1.0, 3.0.9, 3.0.7, 3.0.6, 2.1.0
Build Dependencies:
r, r-rpart
Run Dependencies:
r, r-rpart
Description:
Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'. Plot 'rpart' models. Extends plot.rpart() and text.rpart() in the 'rpart' package.

r-rpmm

Homepage:
Spack package:
Versions:
1.25
Build Dependencies:
r, r-cluster
Run Dependencies:
r, r-cluster
Description:
Recursively Partitioned Mixture Model. Recursively Partitioned Mixture Model for Beta and Gaussian Mixtures. This is a model-based clustering algorithm that returns a hierarchy of classes, similar to hierarchical clustering, but also similar to finite mixture models.

r-rpostgres

Homepage:
Spack package:
Versions:
1.4.3, 1.3.1
Build Dependencies:
r, r-bit64, r-blob, r-dbi, r-hms, r-lubridate, r-rcpp, r-withr, r-plogr, postgresql, r-bh
Link Dependencies:
postgresql
Run Dependencies:
r, r-bit64, r-blob, r-dbi, r-hms, r-lubridate, r-rcpp, r-withr, r-plogr, r-bh
Description:
'Rcpp' Interface to 'PostgreSQL'. Fully 'DBI'-compliant 'Rcpp'-backed interface to 'PostgreSQL' <https://www.postgresql.org/>, an open-source relational database.

r-rpostgresql

Homepage:
Spack package:
Versions:
0.7-3, 0.6-2, 0.4-1
Build Dependencies:
r, r-dbi, postgresql
Link Dependencies:
postgresql
Run Dependencies:
r, r-dbi
Description:
R Interface to the 'PostgreSQL' Database System. Database interface and PostgreSQL driver for R This package provides a Database Interface (DBI) compliant driver for R to access PostgreSQL database systems. In order to build and install this package from source, PostgreSQL itself must be present your system to provide PostgreSQL functionality via its libraries and header files. These files are provided as postgresql-devel package under some Linux distributions. On Microsoft Windows system the attached libpq library source will be used. A wiki and issue tracking system for the package are available at Google Code at https://code.google.com/p/rpostgresql/.

r-rprojroot

Homepage:
Spack package:
Versions:
2.0.2, 1.3-2, 1.2
Build Dependencies:
r, r-backports
Run Dependencies:
r, r-backports
Description:
Finding Files in Project Subdirectories. Robust, reliable and flexible paths to files below a project root. The 'root' of a project is defined as a directory that matches a certain criterion, e.g., it contains a certain regular file.

r-rpsychi

Homepage:
Spack package:
Versions:
0.8
Build Dependencies:
r, r-gtools
Run Dependencies:
r, r-gtools
Description:
Statistics for psychiatric research. The rpsychi offers a number of functions for psychiatry, psychiatric nursing, clinical psychology. Functions are primarily for statistical significance testing using published work. For example, you can conduct a factorial analysis of variance (ANOVA), which requires only the mean, standard deviation, and sample size for each cell, rather than the individual data. This package covers fundamental statistical tests such as t-test, chi-square test, analysis of variance, and multiple regression analysis. With some exceptions, you can obtain effect size and its confidence interval. These functions help you to obtain effect size from published work, and then to conduct a priori power analysis or meta-analysis, even if a researcher do not report effect size in a published work.

r-rrblup

Homepage:
Spack package:
Versions:
4.6.1, 4.6
Build Dependencies:
r
Run Dependencies:
r
Description:
Ridge Regression and Other Kernels for Genomic Selection. Software for genomic prediction with the RR-BLUP mixed model (Endelman 2011, <doi:10.3835/plantgenome2011.08.0024>). One application is to estimate marker effects by ridge regression; alternatively, BLUPs can be calculated based on an additive relationship matrix or a Gaussian kernel.

r-rrcov

Homepage:
Spack package:
Versions:
1.6-1, 1.6-0, 1.5-5, 1.4-7
Build Dependencies:
r, r-robustbase, r-mvtnorm, r-lattice, r-pcapp, r-cluster
Run Dependencies:
r, r-robustbase, r-mvtnorm, r-lattice, r-pcapp, r-cluster
Description:
Scalable Robust Estimators with High Breakdown Point. Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point: principal component analysis (Filzmoser and Todorov (2013), <doi:10.1016/j.ins.2012.10.017>), linear and quadratic discriminant analysis (Todorov and Pires (2007)), multivariate tests (Todorov and Filzmoser (2010) <doi:10.1016/j.csda.2009.08.015>), outlier detection (Todorov et al. (2010) <doi:10.1007/s11634-010-0075-2>). See also Todorov and Filzmoser (2009) <ISBN-13:978-3838108148>, Todorov and Filzmoser (2010) <doi:10.18637/jss.v032.i03> and Boudt et al. (2019) <doi:10.1007/s11222-019-09869-x>.

r-rrpp

Homepage:
Spack package:
Versions:
1.1.2, 0.6.2, 0.4.2, 0.4.1, 0.3.0
Build Dependencies:
r, r-ape, r-ggplot2, r-matrix
Run Dependencies:
r, r-ape, r-ggplot2, r-matrix
Description:
Linear Model Evaluation with Randomized Residuals in a Permutation Procedure. Linear model calculations are made for many random versions of data. Using residual randomization in a permutation procedure, sums of squares are calculated over many permutations to generate empirical probability distributions for evaluating model effects. This packaged is described by Collyer & Adams (2018) <doi:10.1111/2041-210X.13029>. Additionally, coefficients, statistics, fitted values, and residuals generated over many permutations can be used for various procedures including pairwise tests, prediction, classification, and model comparison. This package should provide most tools one could need for the analysis of high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well.

r-rsamtools

Homepage:
Spack package:
Versions:
2.10.0, 2.6.0, 2.2.1, 2.0.3, 1.34.1, 1.32.3, 1.30.0, 1.28.0
Build Dependencies:
r, r-genomeinfodb, r-genomicranges, r-biostrings, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-zlibbioc, r-bitops, r-biocparallel, r-rhtslib, gmake, curl
Link Dependencies:
curl
Run Dependencies:
r, r-genomeinfodb, r-genomicranges, r-biostrings, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-zlibbioc, r-bitops, r-biocparallel, r-rhtslib
Description:
Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import. This package provides an interface to the 'samtools', 'bcftools', and 'tabix' utilities for manipulating SAM (Sequence Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed tab-delimited (tabix) files.

r-rsconnect

Homepage:
Spack package:
Versions:
0.8.25, 0.8.17
Build Dependencies:
r, r-curl, r-digest, r-jsonlite, r-openssl, r-packrat, r-rstudioapi, r-yaml
Run Dependencies:
r, r-curl, r-digest, r-jsonlite, r-openssl, r-packrat, r-rstudioapi, r-yaml
Description:
Deployment Interface for R Markdown Documents and Shiny Applications. Programmatic deployment interface for 'RPubs', 'shinyapps.io', and 'RStudio Connect'. Supported content types include R Markdown documents, Shiny applications, Plumber APIs, plots, and static web content.

r-rsnns

Homepage:
Spack package:
Versions:
0.4-14, 0.4-12, 0.4-11, 0.4-10.1, 0.4-7
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Neural Networks using the Stuttgart Neural Network Simulator (SNNS). The Stuttgart Neural Network Simulator (SNNS) is a library containing many standard implementations of neural networks. This package wraps the SNNS functionality to make it available from within R. Using the RSNNS low- level interface, all of the algorithmic functionality and flexibility of SNNS can be accessed. Furthermore, the package contains a convenient high-level interface, so that the most common neural network topologies and learning algorithms integrate seamlessly into R.

r-rsolnp

Homepage:
Spack package:
Versions:
1.16
Build Dependencies:
r, r-truncnorm
Run Dependencies:
r, r-truncnorm
Description:
General Non-Linear Optimization. General Non-linear Optimization Using Augmented Lagrange Multiplier Method.

r-rspectra

Homepage:
Spack package:
Versions:
0.16-0, 0.15-0
Build Dependencies:
r, r-matrix, r-rcpp, r-rcppeigen
Run Dependencies:
r, r-matrix, r-rcpp, r-rcppeigen
Description:
Solvers for Large-Scale Eigenvalue and SVD Problems. R interface to the 'Spectra' library <https://spectralib.org/> for large-scale eigenvalue and SVD problems. It is typically used to compute a few eigenvalues/vectors of an n by n matrix, e.g., the k largest eigenvalues, which is usually more efficient than eigen() if k << n. This package provides the 'eigs()' function that does the similar job as in 'Matlab', 'Octave', 'Python SciPy' and 'Julia'. It also provides the 'svds()' function to calculate the largest k singular values and corresponding singular vectors of a real matrix. The matrix to be computed on can be dense, sparse, or in the form of an operator defined by the user.

r-rsqlite

Homepage:
Spack package:
Versions:
2.2.10, 2.2.9, 2.2.2, 2.1.2, 2.1.0, 2.0
Build Dependencies:
r, r-bit64, r-blob, r-dbi, r-memoise, r-pkgconfig, r-rcpp, r-plogr, r-bh
Run Dependencies:
r, r-bit64, r-blob, r-dbi, r-memoise, r-pkgconfig, r-rcpp, r-plogr, r-bh
Description:
'SQLite' Interface for R. This package embeds the SQLite database engine in R and provides an interface compliant with the DBI package. The source for the SQLite engine (version 3.8.6) is included.

r-rstan

Homepage:
Spack package:
Versions:
2.21.3, 2.21.2, 2.19.2, 2.18.2, 2.17.2, 2.10.1
Build Dependencies:
r, r-stanheaders, r-ggplot2, r-inline, r-gridextra, r-rcpp, r-rcppparallel, r-loo, r-pkgbuild, r-rcppeigen, r-bh, gmake, pandoc, r-withr, r-v8
Run Dependencies:
r, r-stanheaders, r-ggplot2, r-inline, r-gridextra, r-rcpp, r-rcppparallel, r-loo, r-pkgbuild, r-rcppeigen, r-bh, r-withr, r-v8
Description:
R Interface to Stan. User-facing R functions are provided to parse, compile, test, estimate, and analyze Stan models by accessing the header-only Stan library provided by the 'StanHeaders' package. The Stan project develops a probabilistic programming language that implements full Bayesian statistical inference via Markov Chain Monte Carlo, rough Bayesian inference via variational approximation, and (optionally penalized) maximum likelihood estimation via optimization. In all three cases, automatic differentiation is used to quickly and accurately evaluate gradients without burdening the user with the need to derive the partial derivatives.

r-rstantools

Homepage:
Spack package:
Versions:
2.1.1, 1.5.1
Build Dependencies:
r, r-desc, r-rcpp, r-rcppparallel, pandoc
Run Dependencies:
r, r-desc, r-rcpp, r-rcppparallel
Description:
Tools for Developing R Packages Interfacing with 'Stan'. Provides various tools for developers of R packages interfacing with 'Stan' <https://mc-stan.org>, including functions to set up the required package structure, S3 generics and default methods to unify function naming across 'Stan'-based R packages, and vignettes with recommendations for developers.

r-rstatix

Homepage:
Spack package:
Versions:
0.7.0, 0.6.0
Build Dependencies:
r, r-tidyr, r-purrr, r-broom, r-rlang, r-tibble, r-dplyr, r-magrittr, r-corrplot, r-tidyselect, r-car, r-generics
Run Dependencies:
r, r-tidyr, r-purrr, r-broom, r-rlang, r-tibble, r-dplyr, r-magrittr, r-corrplot, r-tidyselect, r-car, r-generics
Description:
Pipe-Friendly Framework for Basic Statistical Tests. Provides a simple and intuitive pipe-friendly framework, coherent with the 'tidyverse' design philosophy, for performing basic statistical tests, including t-test, Wilcoxon test, ANOVA, Kruskal-Wallis and correlation analyses. The output of each test is automatically transformed into a tidy data frame to facilitate visualization. Additional functions are available for reshaping, reordering, manipulating and visualizing correlation matrix. Functions are also included to facilitate the analysis of factorial experiments, including purely 'within-Ss' designs (repeated measures), purely 'between-Ss' designs, and mixed 'within-and-between- Ss' designs. It's also possible to compute several effect size metrics, including "eta squared" for ANOVA, "Cohen's d" for t-test and 'Cramer V' for the association between categorical variables. The package contains helper functions for identifying univariate and multivariate outliers, assessing normality and homogeneity of variances.

r-rstudioapi

Homepage:
Spack package:
Versions:
0.13, 0.11, 0.10, 0.9.0, 0.7, 0.6, 0.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Safely Access the RStudio API. Access the RStudio API (if available) and provide informative error messages when it's not.

r-rsvd

Homepage:
Spack package:
Versions:
1.0.5, 1.0.3, 1.0.2
Build Dependencies:
r, r-matrix
Run Dependencies:
r, r-matrix
Description:
Randomized Singular Value Decomposition. Low-rank matrix decompositions are fundamental tools and widely used for data analysis, dimension reduction, and data compression. Classically, highly accurate deterministic matrix algorithms are used for this task. However, the emergence of large-scale data has severely challenged our computational ability to analyze big data. The concept of randomness has been demonstrated as an effective strategy to quickly produce approximate answers to familiar problems such as the singular value decomposition (SVD). The rsvd package provides several randomized matrix algorithms such as the randomized singular value decomposition (rsvd), randomized principal component analysis (rpca), randomized robust principal component analysis (rrpca), randomized interpolative decomposition (rid), and the randomized CUR decomposition (rcur). In addition several plot functions are provided. The methods are discussed in detail by Erichson et al. (2016) <arXiv:1608.02148>.

r-rtracklayer

Homepage:
Spack package:
Versions:
1.54.0, 1.50.0, 1.44.4, 1.42.2, 1.40.6, 1.38.3, 1.36.6
Build Dependencies:
r, r-genomicranges, r-xml, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-genomeinfodb, r-biostrings, r-zlibbioc, r-rcurl, r-rsamtools, r-genomicalignments, r-biocio, r-restfulr
Run Dependencies:
r, r-genomicranges, r-xml, r-biocgenerics, r-s4vectors, r-iranges, r-xvector, r-genomeinfodb, r-biostrings, r-zlibbioc, r-rcurl, r-rsamtools, r-genomicalignments, r-biocio, r-restfulr
Description:
R interface to genome annotation files and the UCSC genome browser. Extensible framework for interacting with multiple genome browsers (currently UCSC built-in) and manipulating annotation tracks in various formats (currently GFF, BED, bedGraph, BED15, WIG, BigWig and 2bit built-in). The user may export/import tracks to/from the supported browsers, as well as query and modify the browser state, such as the current viewport.

r-rtsne

Homepage:
Spack package:
Versions:
0.15, 0.13, 0.11, 0.10
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut Implementation. An R wrapper around the fast T-distributed Stochastic Neighbor Embedding implementation.

r-runit

Homepage:
Spack package:
Versions:
0.4.32
Build Dependencies:
r
Run Dependencies:
r
Description:
R Unit Test Framework. R functions implementing a standard Unit Testing framework, with additional code inspection and report generation tools.

r-runjags

Homepage:
Spack package:
Versions:
2.2.0-3, 2.2.0-2
Build Dependencies:
r, r-lattice, r-coda, jags
Link Dependencies:
jags
Run Dependencies:
r, r-lattice, r-coda
Description:
Interface Utilities, Model Templates, Parallel Computing Methods and Additional Distributions for MCMC Models in JAGS. User-friendly interface utilities for MCMC models via Just Another Gibbs Sampler (JAGS), facilitating the use of parallel (or distributed) processors for multiple chains, automated control of convergence and sample length diagnostics, and evaluation of the performance of a model using drop-k validation or against simulated data. Template model specifications can be generated using a standard lme4-style formula interface to assist users less familiar with the BUGS syntax. A JAGS extension module provides additional distributions including the Pareto family of distributions, the DuMouchel prior and the half-Cauchy prior.

r-ruv

Homepage:
Spack package:
Versions:
0.9.7.1
Build Dependencies:
r, r-ggplot2, r-scales, r-gridextra
Run Dependencies:
r, r-ggplot2, r-scales, r-gridextra
Description:
Detect and Remove Unwanted Variation using Negative Controls. Implements the 'RUV' (Remove Unwanted Variation) algorithms. These algorithms attempt to adjust for systematic errors of unknown origin in high- dimensional data. The algorithms were originally developed for use with genomic data, especially microarray data, but may be useful with other types of high-dimensional data as well. These algorithms were proposed in Gagnon-Bartsch and Speed (2012) <doi:10.1093/nar/gkz433>, Gagnon- Bartsch, Jacob and Speed (2013), and Molania, et. al. (2019) <doi:10.1093/nar/gkz433>. The algorithms require the user to specify a set of negative control variables, as described in the references. The algorithms included in this package are 'RUV-2', 'RUV-4', 'RUV-inv', 'RUV-rinv', 'RUV-I', and RUV-III', along with various supporting algorithms.

r-rvcheck

Homepage:
Spack package:
Versions:
0.2.1, 0.1.8, 0.1.3, 0.0.9
Build Dependencies:
r, r-biocmanager, r-yulab-utils, r-rlang
Run Dependencies:
r, r-biocmanager, r-yulab-utils, r-rlang
Description:
R/Package Version Check. Check latest release version of R and R package (both in 'CRAN', 'Bioconductor' or 'Github').

r-rversions

Homepage:
Spack package:
Versions:
2.1.1, 2.0.2, 2.0.1, 2.0.0, 1.1.0, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
r, r-curl, r-xml2
Run Dependencies:
r, r-curl, r-xml2
Description:
Query 'R' Versions, Including 'r-release' and 'r-oldrel'. Query the main 'R' 'SVN' repository to find the versions 'r-release' and 'r-oldrel' refer to, and also all previous 'R' versions and their release dates.

r-rvest

Homepage:
Spack package:
Versions:
1.0.2, 0.3.6, 0.3.4, 0.3.3, 0.3.2
Build Dependencies:
r, r-httr, r-lifecycle, r-magrittr, r-rlang, r-selectr, r-tibble, r-xml2
Run Dependencies:
r, r-httr, r-lifecycle, r-magrittr, r-rlang, r-selectr, r-tibble, r-xml2
Description:
Easily Harvest (Scrape) Web Pages. Wrappers around the 'xml2' and 'httr' packages to make it easy to download, then manipulate, HTML and XML.

r-rviennacl

Homepage:
Spack package:
Versions:
1.7.1.8
Build Dependencies:
r
Run Dependencies:
r
Description:
'ViennaCL' C++ Header Files. 'ViennaCL' is a free open-source linear algebra library for computations on many-core architectures (GPUs, MIC) and multi-core CPUs. The library is written in C++ and supports 'CUDA', 'OpenCL', and 'OpenMP' (including switches at runtime). I have placed these libraries in this package as a more efficient distribution system for CRAN. The idea is that you can write a package that depends on the 'ViennaCL' library and yet you do not need to distribute a copy of this code with your package.

r-rzmq

Homepage:
Spack package:
Versions:
0.9.8, 0.9.7, 0.9.6, 0.9.4, 0.7.7
Build Dependencies:
r, libzmq
Link Dependencies:
libzmq
Run Dependencies:
r
Description:
R Bindings for 'ZeroMQ'. Interface to the 'ZeroMQ' lightweight messaging kernel (see <http://www.zeromq.org/> for more information).

r-s2

Homepage:
Spack package:
Versions:
1.0.7, 1.0.4
Build Dependencies:
r, r-rcpp, r-wk, openssl
Link Dependencies:
openssl
Run Dependencies:
r, r-rcpp, r-wk
Description:
Spherical Geometry Operators Using the S2 Geometry Library. Provides R bindings for Google's s2 library for geometric calculations on the sphere. High-performance constructors and exporters provide high compatibility with existing spatial packages, transformers construct new geometries from existing geometries, predicates provide a means to select geometries based on spatial relationships, and accessors extract information about geometries.

r-s4vectors

Homepage:
Spack package:
Versions:
0.32.3, 0.28.1, 0.26.1, 0.22.1, 0.20.1, 0.18.3, 0.16.0, 0.14.7
Build Dependencies:
r, r-biocgenerics
Run Dependencies:
r, r-biocgenerics
Description:
Foundation of vector-like and list-like containers in Bioconductor. The S4Vectors package defines the Vector and List virtual classes and a set of generic functions that extend the semantic of ordinary vectors and lists in R. Package developers can easily implement vector-like or list- like objects as concrete subclasses of Vector or List. In addition, a few low-level concrete subclasses of general interest (e.g. DataFrame, Rle, and Hits) are implemented in the S4Vectors package itself (many more are implemented in the IRanges package and in other Bioconductor infrastructure packages).

r-samr

Homepage:
Spack package:
Versions:
3.0, 2.0
Build Dependencies:
r, r-impute, r-matrixstats, r-shiny, r-shinyfiles, r-openxlsx, r-gsa
Run Dependencies:
r, r-impute, r-matrixstats, r-shiny, r-shinyfiles, r-openxlsx, r-gsa
Description:
SAM: Significance Analysis of Microarrays. Significance Analysis of Microarrays for differential expression analysis, RNAseq data and related problems.

r-sandwich

Homepage:
Spack package:
Versions:
3.0-1, 3.0-0, 2.5-1, 2.5-0, 2.3-4
Build Dependencies:
r, r-zoo
Run Dependencies:
r, r-zoo
Description:
Robust Covariance Matrix Estimators. Object-oriented software for model- robust covariance matrix estimators. Starting out from the basic robust Eicker-Huber-White sandwich covariance methods include: heteroscedasticity-consistent (HC) covariances for cross-section data; heteroscedasticity- and autocorrelation-consistent (HAC) covariances for time series data (such as Andrews' kernel HAC, Newey-West, and WEAVE estimators); clustered covariances (one-way and multi-way); panel and panel-corrected covariances; outer-product-of-gradients covariances; and (clustered) bootstrap covariances. All methods are applicable to (generalized) linear model objects fitted by lm() and glm() but can also be adapted to other classes through S3 methods. Details can be found in Zeileis et al. (2020) <doi:10.18637/jss.v095.i01>, Zeileis (2004) <doi:10.18637/jss.v011.i10> and Zeileis (2006) <doi:10.18637/jss.v016.i09>.

r-sass

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
r, r-fs, r-rlang, r-htmltools, r-r6, r-rappdirs, gmake
Run Dependencies:
r, r-fs, r-rlang, r-htmltools, r-r6, r-rappdirs
Description:
Syntactically Awesome Style Sheets ('Sass'). An 'SCSS' compiler, powered by the 'LibSass' library. With this, R developers can use variables, inheritance, and functions to generate dynamic style sheets. The package uses the 'Sass CSS' extension language, which is stable, powerful, and CSS compatible.

r-satellite

Homepage:
Spack package:
Versions:
1.0.4, 1.0.2
Build Dependencies:
r, r-raster, r-plyr, r-rcpp, r-terra
Run Dependencies:
r, r-raster, r-plyr, r-rcpp, r-terra
Description:
Handling and Manipulating Remote Sensing Data. Herein, we provide a broad variety of functions which are useful for handling, manipulating, and visualizing satellite-based remote sensing data. These operations range from mere data import and layer handling (eg subsetting), over Raster* typical data wrangling (eg crop, extend), to more sophisticated (pre-)processing tasks typically applied to satellite imagery (eg atmospheric and topographic correction). This functionality is complemented by a full access to the satellite layers' metadata at any stage and the documentation of performed actions in a separate log file. Currently available sensors include Landsat 4-5 (TM), 7 (ETM+), and 8 (OLI/TIRS Combined), and additional compatibility is ensured for the Landsat Global Land Survey data set.

r-scaledmatrix

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r, r-matrix, r-s4vectors, r-delayedarray
Run Dependencies:
r, r-matrix, r-s4vectors, r-delayedarray
Description:
Creating a DelayedMatrix of Scaled and Centered Values. Provides delayed computation of a matrix of scaled and centered values. The result is equivalent to using the scale() function but avoids explicit realization of a dense matrix during block processing. This permits greater efficiency in common operations, most notably matrix multiplication.

r-scales

Homepage:
Spack package:
Versions:
1.1.1, 1.0.0, 0.5.0, 0.4.1, 0.4.0
Build Dependencies:
r, r-farver, r-labeling, r-lifecycle, r-munsell, r-r6, r-rcolorbrewer, r-viridislite, r-dichromat, r-plyr, r-rcpp
Run Dependencies:
r, r-farver, r-labeling, r-lifecycle, r-munsell, r-r6, r-rcolorbrewer, r-viridislite, r-dichromat, r-plyr, r-rcpp
Description:
Scale Functions for Visualization. Graphical scales map data to aesthetics, and provide methods for automatically determining breaks and labels for axes and legends.

r-scattermore

Homepage:
Spack package:
Versions:
0.7
Build Dependencies:
r, r-ggplot2, r-scales
Run Dependencies:
r, r-ggplot2, r-scales
Description:
Scatterplots with More Points. C-based conversion of large scatterplot data to rasters. Speeds up plotting of data with millions of points.

r-scatterpie

Homepage:
Spack package:
Versions:
0.1.7, 0.1.5
Build Dependencies:
r, r-ggplot2, r-ggforce, r-rlang, r-ggfun, r-tidyr, r-rvcheck
Run Dependencies:
r, r-ggplot2, r-ggforce, r-rlang, r-ggfun, r-tidyr, r-rvcheck
Description:
Scatter Pie Plot. Creates scatterpie plots, especially useful for plotting pies on a map.

r-scatterplot3d

Homepage:
Spack package:
Versions:
0.3-41, 0.3-40
Build Dependencies:
r
Run Dependencies:
r
Description:
3D Scatter Plot. Plots a three dimensional (3D) point cloud.

r-scrime

Homepage:
Spack package:
Versions:
1.3.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Analysis of High-Dimensional Categorical Data Such as SNP Data. Tools for the analysis of high-dimensional data developed/implemented at the group "Statistical Complexity Reduction In Molecular Epidemiology" (SCRIME). Main focus is on SNP data. But most of the functions can also be applied to other types of categorical data.

r-sctransform

Homepage:
Spack package:
Versions:
0.3.3, 0.3.2, 0.2.0
Build Dependencies:
r, r-dplyr, r-magrittr, r-mass, r-matrix, r-future-apply, r-future, r-ggplot2, r-reshape2, r-rlang, r-gridextra, r-matrixstats, r-rcpparmadillo, r-rcpp, r-rcppeigen
Run Dependencies:
r, r-dplyr, r-magrittr, r-mass, r-matrix, r-future-apply, r-future, r-ggplot2, r-reshape2, r-rlang, r-gridextra, r-matrixstats, r-rcpparmadillo, r-rcpp, r-rcppeigen
Description:
Variance Stabilizing Transformations for Single Cell UMI Data. A normalization method for single-cell UMI count data using a variance stabilizing transformation. The transformation is based on a negative binomial regression model with regularized parameters. As part of the same regression framework, this package also provides functions for batch correction, and data correction. See Hafemeister and Satija 2019 <doi:10.1101/576827> for more details.

r-scuttle

Homepage:
Spack package:
Versions:
1.4.0, 1.0.4
Build Dependencies:
r, r-singlecellexperiment, r-matrix, r-rcpp, r-biocgenerics, r-s4vectors, r-biocparallel, r-genomicranges, r-summarizedexperiment, r-delayedarray, r-delayedmatrixstats, r-beachmat
Run Dependencies:
r, r-singlecellexperiment, r-matrix, r-rcpp, r-biocgenerics, r-s4vectors, r-biocparallel, r-genomicranges, r-summarizedexperiment, r-delayedarray, r-delayedmatrixstats, r-beachmat
Description:
Single-Cell RNA-Seq Analysis Utilities. Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages.

r-sdmtools

Homepage:
Spack package:
Versions:
1.1-221.2, 1.1-221.1, 1.1-221, 1.1-20, 1.1-13, 1.1-12, 1.1-11
Build Dependencies:
r, r-r-utils
Run Dependencies:
r, r-r-utils
Description:
Species Distribution Modelling Tools: Tools for processing data associated with species distribution modelling exercises. This packages provides a set of tools for post processing the outcomes of species distribution modeling exercises. It includes novel methods for comparing models and tracking changes in distributions through time. It further includes methods for visualizing outcomes, selecting thresholds, calculating measures of accuracy and landscape fragmentation statistics, etc.. This package was made possible in part by financial support from the Australian Research Council & ARC Research Network for Earth System Science.

r-segmented

Homepage:
Spack package:
Versions:
1.4-0, 1.3-4, 1.3-1, 1.0-0, 0.5-4.0, 0.5-2.2, 0.5-1.4
Build Dependencies:
r, r-mass
Run Dependencies:
r, r-mass
Description:
Regression Models with Break-Points / Change-Points Estimation. Given a regression model, segmented 'updates' it by adding one or more segmented (i.e., piece-wise linear) relationships. Several variables with multiple breakpoints are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>) and illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed in Muggeo (2017, <doi:10.1111/anzs.12200>).

r-selectr

Homepage:
Spack package:
Versions:
0.4-2, 0.4-1, 0.4-0, 0.3-1
Build Dependencies:
r, r-stringr, r-r6
Run Dependencies:
r, r-stringr, r-r6
Description:
Translate CSS Selectors to XPath Expressions. Translates a CSS3 selector into an equivalent XPath expression. This allows us to use CSS selectors when working with the XML package as it can only evaluate XPath expressions. Also provided are convenience functions useful for using CSS selectors on XML nodes. This package is a port of the Python package 'cssselect' (<https://cssselect.readthedocs.io/>).

r-seqinr

Homepage:
Spack package:
Versions:
4.2-8, 4.2-5, 3.4-5, 3.3-6
Build Dependencies:
r, r-ade4, r-segmented, zlib
Link Dependencies:
zlib
Run Dependencies:
r, r-ade4, r-segmented
Description:
Biological Sequences Retrieval and Analysis. Exploratory data analysis and data visualization for biological sequence (DNA and protein) data. Seqinr includes utilities for sequence data management under the ACNUC system described in Gouy, M. et al. (1984) Nucleic Acids Res. 12:121-127 <doi:10.1093/nar/12.1Part1.121>.

r-servr

Homepage:
Spack package:
Versions:
0.24, 0.21
Build Dependencies:
r, r-mime, r-httpuv, r-xfun, r-jsonlite
Run Dependencies:
r, r-mime, r-httpuv, r-xfun, r-jsonlite
Description:
A Simple HTTP Server to Serve Static Files or Dynamic Documents. Start an HTTP server in R to serve static files, or dynamic documents that can be converted to HTML files (e.g., R Markdown) under a given directory.

r-sessioninfo

Homepage:
Spack package:
Versions:
1.2.2, 1.1.1
Build Dependencies:
r, r-cli, r-withr
Run Dependencies:
r, r-cli, r-withr
Description:
R Session Information. Query and print information about the current R session. It is similar to 'utils::sessionInfo()', but includes more information about packages, and where they were installed from.

r-seurat

Homepage:
Spack package:
Versions:
4.1.0, 3.2.3, 3.1.0, 3.0.2, 3.0.1, 2.1.0, 2.0.1
Build Dependencies:
r, r-cluster, r-cowplot, r-fitdistrplus, r-future, r-future-apply, r-ggplot2, r-ggrepel, r-ggridges, r-httr, r-ica, r-igraph, r-irlba, r-jsonlite, r-kernsmooth, r-leiden, r-lmtest, r-mass, r-matrix, r-matrixstats, r-miniui, r-patchwork, r-pbapply, r-plotly, r-png, r-rann, r-rcolorbrewer, r-rcpp, r-rcppannoy, r-reticulate, r-rlang, r-rocr, r-rtsne, r-scales, r-scattermore, r-sctransform, r-seuratobject, r-shiny, r-spatstat-core, r-spatstat-geom, r-tibble, r-uwot, r-rcppeigen, r-rcppprogress, r-gplots, r-reshape2, r-ape, r-tidyr, r-caret, r-gdata, r-gridextra, r-hmisc, r-nmf, r-fpc, r-lars, r-dtw, r-mixtools, r-diffusionmap, r-tsne, r-ranger, r-ggjoy, r-sdmtools, r-tclust, r-fnn, r-vgam, r-e1071, r-compositions, r-nmof, r-metap, r-stringr, r-dplyr, r-dosnow, r-foreach, r-hdf5r, r-rsvd, r-spatstat, java
Link Dependencies:
java
Run Dependencies:
r, r-cluster, r-cowplot, r-fitdistrplus, r-future, r-future-apply, r-ggplot2, r-ggrepel, r-ggridges, r-httr, r-ica, r-igraph, r-irlba, r-jsonlite, r-kernsmooth, r-leiden, r-lmtest, r-mass, r-matrix, r-matrixstats, r-miniui, r-patchwork, r-pbapply, r-plotly, r-png, r-rann, r-rcolorbrewer, r-rcpp, r-rcppannoy, r-reticulate, r-rlang, r-rocr, r-rtsne, r-scales, r-scattermore, r-sctransform, r-seuratobject, r-shiny, r-spatstat-core, r-spatstat-geom, r-tibble, r-uwot, r-rcppeigen, r-rcppprogress, r-gplots, r-reshape2, r-ape, r-tidyr, r-caret, r-gdata, r-gridextra, r-hmisc, r-nmf, r-fpc, r-lars, r-dtw, r-mixtools, r-diffusionmap, r-tsne, r-ranger, r-ggjoy, r-sdmtools, r-tclust, r-fnn, r-vgam, r-e1071, r-compositions, r-nmof, r-metap, r-stringr, r-dplyr, r-dosnow, r-foreach, r-hdf5r, r-rsvd, r-spatstat
Description:
Tools for Single Cell Genomics. A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031> for more details.

r-seuratobject

Homepage:
Spack package:
Versions:
4.0.4
Build Dependencies:
r, r-matrix, r-rcpp, r-rlang, r-rcppeigen
Run Dependencies:
r, r-matrix, r-rcpp, r-rlang, r-rcppeigen
Description:
Data Structures for Single Cell Data. Defines S4 classes for single-cell genomic data and associated information, such as dimensionality reduction embeddings, nearest-neighbor graphs, and spatially-resolved coordinates. Provides data access methods and R-native hooks to ensure the Seurat object is familiar to other R users. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031> for more details.

r-sf

Homepage:
Spack package:
Versions:
1.0-7, 1.0-5, 0.9-7, 0.7-7, 0.7-5, 0.5-5
Build Dependencies:
r, r-classint, r-dbi, r-magrittr, r-rcpp, r-s2, r-units, gdal, geos, proj, sqlite
Link Dependencies:
gdal, geos, proj, sqlite
Run Dependencies:
r, r-classint, r-dbi, r-magrittr, r-rcpp, r-s2, r-units
Description:
Simple Features for R. Support for simple features, a standardized way to encode spatial vector data. Binds to 'GDAL' for reading and writing data, to 'GEOS' for geometrical operations, and to 'PROJ' for projection conversions and datum transformations. Optionally uses the 's2' package for spherical geometry operations on geographic coordinates.

r-sfheaders

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
r, r-geometries, r-rcpp
Run Dependencies:
r, r-geometries, r-rcpp
Description:
Converts Between R Objects and Simple Feature Objects. Converts between R and Simple Feature 'sf' objects, without depending on the Simple Feature library. Conversion functions are available at both the R level, and through 'Rcpp'.

r-sfsmisc

Homepage:
Spack package:
Versions:
1.1-12, 1.1-8, 1.1-4, 1.1-3, 1.1-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Utilities from 'Seminar fuer Statistik' ETH Zurich. Useful utilities ['goodies'] from Seminar fuer Statistik ETH Zurich, some of which were ported from S-plus in the 1990s.; For graphics, have pretty (Log-scale) axes, an enhanced Tukey-Anscombe plot, combining histogram and boxplot, 2d-residual plots, a 'tachoPlot()', pretty arrows, etc.; For robustness, have a robust F test and robust range().; For system support, notably on Linux, provides 'Sys.*()' functions with more access to system and CPU information.; Finally, miscellaneous utilities such as simple efficient prime numbers, integer codes, Duplicated(), toLatex.numeric() and is.whole().

r-shadowtext

Homepage:
Spack package:
Versions:
0.1.1, 0.0.7
Build Dependencies:
r, r-ggplot2, r-scales
Run Dependencies:
r, r-ggplot2, r-scales
Description:
Shadow Text Grob and Layer. Implement shadowtextGrob() for 'grid' and geom_shadowtext() layer for 'ggplot2'. These functions create/draw text grob with background shadow.

r-shape

Homepage:
Spack package:
Versions:
1.4.6, 1.4.5, 1.4.4, 1.4.3, 1.4.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for Plotting Graphical Shapes, Colors. Functions for plotting graphical shapes such as ellipses, circles, cylinders, arrows, ...

r-shiny

Homepage:
Spack package:
Versions:
1.7.1, 1.5.0, 1.3.2, 1.0.5, 0.13.2
Build Dependencies:
r, r-httpuv, r-mime, r-jsonlite, r-xtable, r-fontawesome, r-htmltools, r-r6, r-sourcetools, r-later, r-promises, r-crayon, r-rlang, r-fastmap, r-withr, r-commonmark, r-glue, r-bslib, r-cachem, r-ellipsis, r-lifecycle, r-digest
Run Dependencies:
r, r-httpuv, r-mime, r-jsonlite, r-xtable, r-fontawesome, r-htmltools, r-r6, r-sourcetools, r-later, r-promises, r-crayon, r-rlang, r-fastmap, r-withr, r-commonmark, r-glue, r-bslib, r-cachem, r-ellipsis, r-lifecycle, r-digest
Description:
Web Application Framework for R. Makes it incredibly easy to build interactive web applications with R. Automatic "reactive" binding between inputs and outputs and extensive pre-built widgets make it possible to build beautiful, responsive, and powerful applications with minimal effort.

r-shinydashboard

Homepage:
Spack package:
Versions:
0.7.2, 0.7.1, 0.7.0, 0.6.1
Build Dependencies:
r, r-shiny, r-htmltools, r-promises
Run Dependencies:
r, r-shiny, r-htmltools, r-promises
Description:
Create Dashboards with 'Shiny'. Create dashboards with 'Shiny'. This package provides a theme on top of 'Shiny', making it easy to create attractive dashboards.

r-shinyfiles

Homepage:
Spack package:
Versions:
0.9.1, 0.9.0, 0.7.3
Build Dependencies:
r, r-htmltools, r-jsonlite, r-shiny, r-fs, r-tibble
Run Dependencies:
r, r-htmltools, r-jsonlite, r-shiny, r-fs, r-tibble
Description:
A Server-Side File System Viewer for Shiny. Provides functionality for client-side navigation of the server side file system in shiny apps. In case the app is running locally this gives the user direct access to the file system without the need to "download" files to a temporary location. Both file and folder selection as well as file saving is available.

r-shinyjs

Homepage:
Spack package:
Versions:
2.1.0, 2.0.0
Build Dependencies:
r, r-digest, r-jsonlite, r-shiny, r-htmltools, pandoc
Run Dependencies:
r, r-digest, r-jsonlite, r-shiny, r-htmltools
Description:
Easily Improve the User Experience of Your Shiny Apps in Seconds. Perform common useful JavaScript operations in Shiny apps that will greatly improve your apps without having to know any JavaScript. Examples include: hiding an element, disabling an input, resetting an input back to its original value, delaying code execution by a few seconds, and many more useful functions for both the end user and the developer. 'shinyjs' can also be used to easily call your own custom JavaScript functions from R.

r-shinystan

Homepage:
Spack package:
Versions:
2.5.0
Build Dependencies:
r, r-shiny, r-bayesplot, r-colourpicker, r-dt, r-dygraphs, r-ggplot2, r-gridextra, r-gtools, r-markdown, r-reshape2, r-rsconnect, r-rstan, r-shinyjs, r-shinythemes, r-threejs, r-xtable, r-xts
Run Dependencies:
r, r-shiny, r-bayesplot, r-colourpicker, r-dt, r-dygraphs, r-ggplot2, r-gridextra, r-gtools, r-markdown, r-reshape2, r-rsconnect, r-rstan, r-shinyjs, r-shinythemes, r-threejs, r-xtable, r-xts
Description:
Interactive Visual and Numerical Diagnostics and Posterior Analysis for Bayesian Models. A graphical user interface for interactive Markov chain Monte Carlo (MCMC) diagnostics and plots and tables helpful for analyzing a posterior sample. The interface is powered by the 'Shiny' web application framework from 'RStudio' and works with the output of MCMC programs written in any programming language (and has extended functionality for 'Stan' models fit using the 'rstan' and 'rstanarm' packages).

r-shinythemes

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
r, r-shiny
Run Dependencies:
r, r-shiny
Description:
Themes for Shiny. Themes for use with Shiny. Includes several Bootstrap themes from <https://bootswatch.com/>, which are packaged for use with Shiny applications.

r-shortread

Homepage:
Spack package:
Versions:
1.52.0, 1.48.0, 1.42.0, 1.40.0, 1.38.0, 1.36.1, 1.34.2
Build Dependencies:
r, r-biocgenerics, r-biocparallel, r-biostrings, r-rsamtools, r-genomicalignments, r-biobase, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-hwriter, r-zlibbioc, r-lattice, r-latticeextra, r-xvector, r-rhtslib
Run Dependencies:
r, r-biocgenerics, r-biocparallel, r-biostrings, r-rsamtools, r-genomicalignments, r-biobase, r-s4vectors, r-iranges, r-genomeinfodb, r-genomicranges, r-hwriter, r-zlibbioc, r-lattice, r-latticeextra, r-xvector, r-rhtslib
Description:
FASTQ input and manipulation. This package implements sampling, iteration, and input of FASTQ files. The package includes functions for filtering and trimming reads, and for generating a quality assessment report. Data are represented as DNAStringSet-derived objects, and easily manipulated for a diversity of purposes. The package also contains legacy support for early single-end, ungapped alignment formats.

r-siggenes

Homepage:
Spack package:
Versions:
1.68.0, 1.64.0, 1.58.0, 1.56.0, 1.54.0, 1.52.0, 1.50.0
Build Dependencies:
r, r-biobase, r-multtest, r-scrime
Run Dependencies:
r, r-biobase, r-multtest, r-scrime
Description:
Multiple Testing using SAM and Efron's Empirical Bayes Approaches. Identification of differentially expressed genes and estimation of the False Discovery Rate (FDR) using both the Significance Analysis of Microarrays (SAM) and the Empirical Bayes Analyses of Microarrays (EBAM).

r-simpleaffy

Homepage:
Spack package:
Versions:
2.66.0, 2.60.0, 2.58.0, 2.56.0, 2.54.0, 2.52.0
Build Dependencies:
r, r-biocgenerics, r-biobase, r-affy, r-genefilter, r-gcrma
Run Dependencies:
r, r-biocgenerics, r-biobase, r-affy, r-genefilter, r-gcrma
Description:
Very simple high level analysis of Affymetrix data. Provides high level functions for reading Affy .CEL files, phenotypic data, and then computing simple things with it, such as t-tests, fold changes and the like. Makes heavy use of the affy library. Also has some basic scatter plot functions and mechanisms for generating high resolution journal figures...

r-singlecellexperiment

Homepage:
Spack package:
Versions:
1.16.0, 1.12.0, 1.6.0, 1.4.1, 1.2.0, 1.0.0
Build Dependencies:
r, r-summarizedexperiment, r-s4vectors, r-biocgenerics, r-genomicranges, r-delayedarray
Run Dependencies:
r, r-summarizedexperiment, r-s4vectors, r-biocgenerics, r-genomicranges, r-delayedarray
Description:
S4 Classes for Single Cell Data. Defines a S4 class for storing data from single-cell experiments. This includes specialized methods to store and retrieve spike-in information, dimensionality reduction coordinates and size factors for each cell, along with the usual metadata for genes and libraries.

r-sitmo

Homepage:
Spack package:
Versions:
2.0.2, 2.0.1
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files. Provided within are two high quality and fast PPRNGs that may be used in an 'OpenMP' parallel environment. In addition, there is a generator for one dimensional low-discrepancy sequence. The objective of this library to consolidate the distribution of the 'sitmo' (C++98 & C++11), 'threefry' and 'vandercorput' (C++11-only) engines on CRAN by enabling others to link to the header files inside of 'sitmo' instead of including a copy of each engine within their individual package. Lastly, the package contains example implementations using the 'sitmo' package and three accompanying vignette that provide additional information.

r-sm

Homepage:
Spack package:
Versions:
2.2-5.7, 2.2-5.6, 2.2-5.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Smoothing Methods for Nonparametric Regression and Density Estimation. This is software linked to the book 'Applied Smoothing Techniques for Data Analysis - The Kernel Approach with S-Plus Illustrations' Oxford University Press.

r-smoof

Homepage:
Spack package:
Versions:
1.6.0.2, 1.5.1, 1.5
Build Dependencies:
r, r-paramhelpers, r-checkmate, r-bbmisc, r-ggplot2, r-rcolorbrewer, r-plot3d, r-plotly, r-mco, r-rcpp, r-rjsonio, r-rcpparmadillo
Run Dependencies:
r, r-paramhelpers, r-checkmate, r-bbmisc, r-ggplot2, r-rcolorbrewer, r-plot3d, r-plotly, r-mco, r-rcpp, r-rjsonio, r-rcpparmadillo
Description:
Single and Multi-Objective Optimization Test Functions. Provides generators for a high number of both single- and multi- objective test functions which are frequently used for the benchmarking of (numerical) optimization algorithms. Moreover, it offers a set of convenient functions to generate, plot and work with objective functions.

r-sn

Homepage:
Spack package:
Versions:
2.0.1, 1.6-2, 1.5-4, 1.5-3, 1.5-0, 1.4-0, 1.3-0, 1.2-4, 1.2-3
Build Dependencies:
r, r-mnormt, r-numderiv, r-quantreg
Run Dependencies:
r, r-mnormt, r-numderiv, r-quantreg
Description:
The Skew-Normal and Related Distributions Such as the Skew-t. Build and manipulate probability distributions of the skew-normal family and some related ones, notably the skew-t family, and provide related statistical methods for data fitting and diagnostics, in the univariate and the multivariate case.

r-snakecase

Homepage:
Spack package:
Versions:
0.11.0
Build Dependencies:
r, r-stringr, r-stringi
Run Dependencies:
r, r-stringr, r-stringi
Description:
Convert Strings into any Case. A consistent, flexible and easy to use tool to parse and convert strings into cases like snake or camel among others.

r-snow

Homepage:
Spack package:
Versions:
0.4-4, 0.4-3, 0.4-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Simple Network of Workstations. Support for simple parallel computing in R.

r-snowfall

Homepage:
Spack package:
Versions:
1.84-6.1
Build Dependencies:
r, r-snow
Run Dependencies:
r, r-snow
Description:
Easier cluster computing (based on snow). Usability wrapper around snow for easier development of parallel R programs. This package offers e.g. extended error checks, and additional functions. All functions work in sequential mode, too, if no cluster is present or wished. Package is also designed as connector to the cluster management tool sfCluster, but can also used without it.

r-snprelate

Homepage:
Spack package:
Versions:
1.28.0, 1.24.0, 1.18.1, 1.16.0, 1.14.0, 1.12.2, 1.10.2
Build Dependencies:
r, r-gdsfmt
Run Dependencies:
r, r-gdsfmt
Description:
Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data. Genome-wide association studies (GWAS) are widely used to investigate the genetic basis of diseases and traits, but they pose many computational challenges. We developed an R package SNPRelate to provide a binary format for single-nucleotide polymorphism (SNP) data in GWAS utilizing CoreArray Genomic Data Structure (GDS) data files. The GDS format offers the efficient operations specifically designed for integers with two bits, since a SNP could occupy only two bits. SNPRelate is also designed to accelerate two key computations on SNP data using parallel computing for multi-core symmetric multiprocessing computer architectures: Principal Component Analysis (PCA) and relatedness analysis using Identity-By-Descent measures. The SNP GDS format is also used by the GWASTools package with the support of S4 classes and generic functions. The extended GDS format is implemented in the SeqArray package to support the storage of single nucleotide variations (SNVs), insertion/deletion polymorphism (indel) and structural variation calls.

r-snpstats

Homepage:
Spack package:
Versions:
1.44.0, 1.40.0, 1.34.0, 1.32.0, 1.30.0, 1.28.0, 1.26.0
Build Dependencies:
r, r-survival, r-matrix, r-biocgenerics, r-zlibbioc
Run Dependencies:
r, r-survival, r-matrix, r-biocgenerics, r-zlibbioc
Description:
SnpMatrix and XSnpMatrix classes and methods. Classes and statistical methods for large SNP association studies. This extends the earlier snpMatrix package, allowing for uncertainty in genotypes.

r-som

Homepage:
Spack package:
Versions:
0.3-5.1, 0.3-5, 0.3-4, 0.3-3, 0.3-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Self-Organizing Map. Self-Organizing Map (with application in gene clustering).

r-somaticsignatures

Homepage:
Spack package:
Versions:
2.30.0, 2.26.0, 2.20.0, 2.18.0, 2.16.0, 2.14.0, 2.12.1
Build Dependencies:
r, r-variantannotation, r-genomicranges, r-nmf, r-s4vectors, r-iranges, r-genomeinfodb, r-biostrings, r-ggplot2, r-ggbio, r-reshape2, r-pcamethods, r-biobase, r-proxy
Run Dependencies:
r, r-variantannotation, r-genomicranges, r-nmf, r-s4vectors, r-iranges, r-genomeinfodb, r-biostrings, r-ggplot2, r-ggbio, r-reshape2, r-pcamethods, r-biobase, r-proxy
Description:
Somatic Signatures. The SomaticSignatures package identifies mutational signatures of single nucleotide variants (SNVs). It provides a infrastructure related to the methodology described in Nik-Zainal (2012, Cell), with flexibility in the matrix decomposition algorithms.

r-sourcetools

Homepage:
Spack package:
Versions:
0.1.7, 0.1.6, 0.1.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for Reading, Tokenizing and Parsing R Code. Tools for the reading and tokenization of R code. The 'sourcetools' package provides both an R and C++ interface for the tokenization of R code, and helpers for interacting with the tokenized representation of R code.

r-sp

Homepage:
Spack package:
Versions:
1.4-6, 1.4-5, 1.3-1, 1.2-7, 1.2-3
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
Classes and Methods for Spatial Data. Classes and methods for spatial data; the classes document where the spatial location information resides, for 2D or 3D data. Utility functions are provided, e.g. for plotting data as maps, spatial selection, as well as methods for retrieving coordinates, for subsetting, print, summary, etc.

r-spacetime

Homepage:
Spack package:
Versions:
1.2-6, 1.2-5, 1.2-3, 1.2-2
Build Dependencies:
r, r-lattice, r-sp, r-zoo, r-xts, r-intervals
Run Dependencies:
r, r-lattice, r-sp, r-zoo, r-xts, r-intervals
Description:
Classes and Methods for Spatio-Temporal Data. Classes and methods for spatio-temporal data, including space-time regular lattices, sparse lattices, irregular data, and trajectories; utility functions for plotting data as map sequences (lattice or animation) or multiple time series; methods for spatial and temporal selection and subsetting, as well as for spatial/temporal/spatio-temporal matching or aggregation, retrieving coordinates, print, summary, etc.

r-spades

Homepage:
Spack package:
Versions:
2.0.7, 2.0.6
Build Dependencies:
r, r-quickplot, r-reproducible, r-spades-core, r-spades-tools, r-spades-addins
Run Dependencies:
r, r-quickplot, r-reproducible, r-spades-core, r-spades-tools, r-spades-addins
Description:
Develop and Run Spatially Explicit Discrete Event Simulation Models. Metapackage for implementing a variety of event-based models, with a focus on spatially explicit models. These include raster-based, event- based, and agent-based models. The core simulation components (provided by 'SpaDES.core') are built upon a discrete event simulation (DES; see Matloff (2011) ch 7.8.3 <https://nostarch.com/artofr.htm>) framework that facilitates modularity, and easily enables the user to include additional functionality by running user-built simulation modules (see also 'SpaDES.tools'). Included are numerous tools to visualize rasters and other maps (via 'quickPlot'), and caching methods for reproducible simulations (via 'reproducible'). Tools for running simulation experiments are provided by 'SpaDES.experiment'. Additional functionality is provided by the 'SpaDES.addins' and 'SpaDES.shiny' packages.

r-spades-addins

Homepage:
Spack package:
Versions:
0.1.3, 0.1.2
Build Dependencies:
r, r-devtools, r-magrittr, r-miniui, r-reproducible, r-rstudioapi, r-shiny, r-spades-core, r-stringi
Run Dependencies:
r, r-devtools, r-magrittr, r-miniui, r-reproducible, r-rstudioapi, r-shiny, r-spades-core, r-stringi
Description:
Development Tools for 'SpaDES' and 'SpaDES' Modules. Provides 'RStudio' addins for 'SpaDES' packages and 'SpaDES' module development. See '?SpaDES.addins' for an overview of the tools provided.

r-spades-core

Homepage:
Spack package:
Versions:
1.0.10, 1.0.9, 1.0.5
Build Dependencies:
r, r-quickplot, r-reproducible, r-crayon, r-data-table, r-fastdigest, r-igraph, r-qs, r-raster, r-require, r-whisker
Run Dependencies:
r, r-quickplot, r-reproducible, r-crayon, r-data-table, r-fastdigest, r-igraph, r-qs, r-raster, r-require, r-whisker
Description:
Utilities for Developing and Running Spatially Explicit Discrete Event Models. Provides the core framework for a discrete event system (DES) to implement acomplete data-to-decisions, reproducible workflow. The core DES components facilitate modularity, and easily enable the user to include additional functionality by running user-built modules. Includes conditional scheduling, restart after interruption, packaging of reusable modules, tools for developing arbitrary automated workflows, automated interweaving of modules of different temporal resolution, and tools for visualizing and understanding the DES project.

r-spades-tools

Homepage:
Spack package:
Versions:
0.3.9, 0.3.6
Build Dependencies:
r, r-backports, r-checkmate, r-circstats, r-data-table, r-fastmatch, r-fpcompare, r-magrittr, r-quickplot, r-raster, r-rcpp, r-reproducible, r-rgeos, r-sp
Run Dependencies:
r, r-backports, r-checkmate, r-circstats, r-data-table, r-fastmatch, r-fpcompare, r-magrittr, r-quickplot, r-raster, r-rcpp, r-reproducible, r-rgeos, r-sp
Description:
Tools for Spatially Explicit Discrete Event Simulation (SpaDES) Models. Provides GIS and map utilities, plus additional modeling tools for developing cellular automata, dynamic raster models, and agent based models in 'SpaDES'. Included are various methods for spatial spreading, spatial agents, GIS operations, random map generation, and others. See '?SpaDES.tools' for an categorized overview of these additional tools.

r-spam

Homepage:
Spack package:
Versions:
2.8-0, 2.6-0, 2.3-0.2
Build Dependencies:
r, r-dotcall64
Run Dependencies:
r, r-dotcall64
Description:
SPArse Matrix. Set of functions for sparse matrix algebra. Differences with other sparse matrix packages are: (1) we only support (essentially) one sparse matrix format, (2) based on transparent and simple structure(s), (3) tailored for MCMC calculations within G(M)RF. (4) and it is fast and scalable (with the extension package spam64). Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.

r-sparsem

Homepage:
Spack package:
Versions:
1.81, 1.78, 1.77, 1.76, 1.74, 1.7
Build Dependencies:
r
Run Dependencies:
r
Description:
Sparse Linear Algebra. Some basic linear algebra functionality for sparse matrices is provided: including Cholesky decomposition and backsolving as well as standard R subsetting and Kronecker products.

r-sparsematrixstats

Homepage:
Spack package:
Versions:
1.6.0, 1.2.1
Build Dependencies:
r, r-matrixgenerics, r-rcpp, r-matrix, r-matrixstats
Run Dependencies:
r, r-matrixgenerics, r-rcpp, r-matrix, r-matrixstats
Description:
Summary Statistics for Rows and Columns of Sparse Matrices. High performance functions for row and column operations on sparse matrices. For example: col / rowMeans2, col / rowMedians, col / rowVars etc. Currently, the optimizations are limited to data in the column sparse format. This package is inspired by the matrixStats package by Henrik Bengtsson.

r-spatial

Homepage:
Spack package:
Versions:
7.3-15, 7.3-12, 7.3-11
Build Dependencies:
r, r-mass
Run Dependencies:
r, r-mass
Description:
Functions for Kriging and Point Pattern Analysis. Functions for kriging and point pattern analysis.

r-spatialeco

Homepage:
Spack package:
Versions:
1.3-7, 1.3-5, 1.3-2, 1.3-1, 1.3-0
Build Dependencies:
r, r-sp, r-sf, r-raster, r-spatstat-geom, r-spatstat-core, r-spdep, r-rgeos, r-mass, r-dplyr, r-exactextractr, r-rcurl, r-rms, r-yaimpute, r-spatialpack, r-mgcv, r-envstats, r-cluster, r-readr, r-rann, r-maptools, r-spatstat
Run Dependencies:
r, r-sp, r-sf, r-raster, r-spatstat-geom, r-spatstat-core, r-spdep, r-rgeos, r-mass, r-dplyr, r-exactextractr, r-rcurl, r-rms, r-yaimpute, r-spatialpack, r-mgcv, r-envstats, r-cluster, r-readr, r-rann, r-maptools, r-spatstat
Description:
Spatial Analysis and Modelling Utilities. Utilities to support spatial data manipulation, query, sampling and modelling. Functions include models for species population density, download utilities for climate and global deforestation spatial products, spatial smoothing, multivariate separability, point process model for creating pseudo- absences and sub-sampling, polygon and point-distance landscape metrics, auto-logistic model, sampling models, cluster optimization, statistical exploratory tools and raster-based metrics.

r-spatialpack

Homepage:
Spack package:
Versions:
0.3-8196, 0.3-8, 0.3
Build Dependencies:
r, r-fastmatrix
Run Dependencies:
r, r-fastmatrix
Description:
Tools to assess the association between two spatial processes. Tools to assess the association between two spatial processes. Currently, several methodologies are implemented: A modified t-test to perform hypothesis testing about the independence between the processes, a suitable nonparametric correlation coefficient, the codispersion coefficient, and an F test for assessing the multiple correlation between one spatial process and several others. Functions for image processing and computing the spatial association between images are also provided.

r-spatialreg

Homepage:
Spack package:
Versions:
1.2-1, 1.1-5, 1.1-3
Build Dependencies:
r, r-spdata, r-matrix, r-sf, r-spdep, r-expm, r-coda, r-mass, r-boot, r-learnbayes, r-nlme, r-gmodels
Run Dependencies:
r, r-spdata, r-matrix, r-sf, r-spdep, r-expm, r-coda, r-mass, r-boot, r-learnbayes, r-nlme, r-gmodels
Description:
Spatial Regression Analysis. A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep', 'sphet' and 'spse'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross- sectional spatial regression models. Methods for fitting the log determinant term in maximum likelihood and MCMC fitting are compared by 'Bivand et al.' (2013) <doi:10.1111/gean.12008>, and model fitting methods by 'Bivand' and 'Piras' (2015) <doi:10.18637/jss.v063.i18>; both of these articles include extensive lists of references. 'spatialreg' >= 1.1-* correspond to 'spdep' >= 1.1-1, in which the model fitting functions are deprecated and pass through to 'spatialreg', but will mask those in 'spatialreg'. From versions 1.2-*, the functions will be made defunct in 'spdep'.

r-spatstat

Homepage:
Spack package:
Versions:
2.3-0, 1.64-1, 1.63-3
Build Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-spatstat-core, r-spatstat-linnet, r-spatstat-utils, r-rpart, r-nlme, r-mgcv, r-matrix, r-deldir, r-abind, r-tensor, r-polyclip, r-goftest
Run Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-spatstat-core, r-spatstat-linnet, r-spatstat-utils, r-rpart, r-nlme, r-mgcv, r-matrix, r-deldir, r-abind, r-tensor, r-polyclip, r-goftest
Description:
Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests. Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three- dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images. Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi- squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox- Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported. Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.

r-spatstat-core

Homepage:
Spack package:
Versions:
2.3-2
Build Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-nlme, r-rpart, r-spatstat-utils, r-spatstat-sparse, r-mgcv, r-matrix, r-abind, r-tensor, r-goftest
Run Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-nlme, r-rpart, r-spatstat-utils, r-spatstat-sparse, r-mgcv, r-matrix, r-abind, r-tensor, r-goftest
Description:
Core Functionality of the 'spatstat' Family. Functionality for data analysis and modelling of spatial data, mainly spatial point patterns, in the 'spatstat' family of packages. (Excludes analysis of spatial data on a linear network, which is covered by the separate package 'spatstat.linnet'.) Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov- Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two- stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller- Lawson, Kolmogorov-Smirnov, ANOVA) are also supported. Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.

r-spatstat-data

Homepage:
Spack package:
Versions:
2.1-2, 1.7-0, 1.4-3, 1.4-0
Build Dependencies:
r, r-spatstat-utils, r-matrix
Run Dependencies:
r, r-spatstat-utils, r-matrix
Description:
Datasets for 'spatstat' Family. Contains all the datasets for the 'spatstat' family of packages.

r-spatstat-geom

Homepage:
Spack package:
Versions:
2.3-1
Build Dependencies:
r, r-spatstat-data, r-spatstat-utils, r-deldir, r-polyclip
Run Dependencies:
r, r-spatstat-data, r-spatstat-utils, r-deldir, r-polyclip
Description:
Geometrical Functionality of the 'spatstat' Family. Defines spatial data types and supports geometrical operations on them. Data types include point patterns, windows (domains), pixel images, line segment patterns, tessellations and hyperframes. Capabilities include creation and manipulation of data (using command line or graphical interaction), plotting, geometrical operations (rotation, shift, rescale, affine transformation), convex hull, discretisation and pixellation, Dirichlet tessellation, Delaunay triangulation, pairwise distances, nearest- neighbour distances, distance transform, morphological operations (erosion, dilation, closing, opening), quadrat counting, geometrical measurement, geometrical covariance, colour maps, calculus on spatial domains, Gaussian blur, level sets of images, transects of images, intersections between objects, minimum distance matching. (Excludes spatial data on a network, which are supported by the package 'spatstat.linnet'.)

r-spatstat-linnet

Homepage:
Spack package:
Versions:
2.3-1
Build Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-spatstat-core, r-spatstat-utils, r-matrix, r-spatstat-sparse
Run Dependencies:
r, r-spatstat-data, r-spatstat-geom, r-spatstat-core, r-spatstat-utils, r-matrix, r-spatstat-sparse
Description:
Linear Networks Functionality of the 'spatstat' Family. Defines types of spatial data on a linear network and provides functionality for geometrical operations, data analysis and modelling of data on a linear network, in the 'spatstat' family of packages. Contains definitions and support for linear networks, including creation of networks, geometrical measurements, topological connectivity, geometrical operations such as inserting and deleting vertices, intersecting a network with another object, and interactive editing of networks. Data types defined on a network include point patterns, pixel images, functions, and tessellations. Exploratory methods include kernel estimation of intensity on a network, K-functions and pair correlation functions on a network, simulation envelopes, nearest neighbour distance and empty space distance, relative risk estimation with cross-validated bandwidth selection. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao- Genton, two-stage Monte Carlo) and tests for covariate effects (Cox- Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported. Parametric models can be fitted to point pattern data using the function lppm() similar to glm(). Only Poisson models are implemented so far. Models may involve dependence on covariates and dependence on marks. Models are fitted by maximum likelihood. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots. Random point patterns on a network can be generated using a variety of models.

r-spatstat-sparse

Homepage:
Spack package:
Versions:
2.1-0
Build Dependencies:
r, r-matrix, r-abind, r-tensor, r-spatstat-utils
Run Dependencies:
r, r-matrix, r-abind, r-tensor, r-spatstat-utils
Description:
Sparse Three-Dimensional Arrays and Linear Algebra Utilities. Defines sparse three-dimensional arrays and supports standard operations on them. The package also includes utility functions for matrix calculations that are common in statistics, such as quadratic forms.

r-spatstat-utils

Homepage:
Spack package:
Versions:
2.3-0, 1.20-2, 1.17-0, 1.15-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Utility Functions for 'spatstat'. Contains utility functions for the 'spatstat' package which may also be useful for other purposes.

r-spdata

Homepage:
Spack package:
Versions:
2.0.1, 0.3.8, 0.3.0
Build Dependencies:
r, r-sp, r-raster
Run Dependencies:
r, r-sp, r-raster
Description:
Datasets for Spatial Analysis. Diverse spatial datasets for demonstrating, benchmarking and teaching spatial data analysis. It includes R data of class sf (defined by the package 'sf'), Spatial ('sp'), and nb ('spdep'). Unlike other spatial data packages such as 'rnaturalearth' and 'maps', it also contains data stored in a range of file formats including GeoJSON, ESRI Shapefile and GeoPackage. Some of the datasets are designed to illustrate specific analysis techniques. cycle_hire() and cycle_hire_osm(), for example, is designed to illustrate point pattern analysis techniques.

r-spdep

Homepage:
Spack package:
Versions:
1.2-2, 1.2-1, 1.1-5, 1.1-2, 1.0-2, 0.6-13
Build Dependencies:
r, r-sp, r-spdata, r-sf, r-deldir, r-boot, r-units, r-s2, r-e1071, r-matrix, r-learnbayes, r-mass, r-coda, r-expm, r-gmodels, r-nlme
Run Dependencies:
r, r-sp, r-spdata, r-sf, r-deldir, r-boot, r-units, r-s2, r-e1071, r-matrix, r-learnbayes, r-mass, r-coda, r-expm, r-gmodels, r-nlme
Description:
Spatial Dependence: Weighting Schemes, Statistics. A collection of functions to create spatial weights matrix objects from polygon 'contiguities', from point patterns by distance and tessellations, for summarizing these objects, and for permitting their use in spatial data analysis, including regional aggregation by minimum spanning tree; a collection of tests for spatial 'autocorrelation', including global 'Morans I' and 'Gearys C' proposed by 'Cliff' and 'Ord' (1973, ISBN: 0850860369) and (1981, ISBN: 0850860814), 'Hubert/Mantel' general cross product statistic, Empirical Bayes estimates and 'Assuncao/Reis' (1999) <doi:10.1002/(SICI)1097-0258(19990830)18:16%3C2147::AID-SIM179%3E3.0.CO

r-speedglm

Homepage:
Spack package:
Versions:
0.3-3, 0.3-2
Build Dependencies:
r, r-matrix, r-mass
Run Dependencies:
r, r-matrix, r-mass
Description:
Fitting Linear and Generalized Linear Models to Large Data Sets. Fitting linear models and generalized linear models to large data sets by updating algorithms.

r-spem

Homepage:
Spack package:
Versions:
1.34.0, 1.30.0, 1.24.0, 1.22.0, 1.20.0, 1.18.0, 1.16.0
Build Dependencies:
r, r-rsolnp, r-biobase
Run Dependencies:
r, r-rsolnp, r-biobase
Description:
S-system parameter estimation method. This package can optimize the parameter in S-system models given time series data

r-splancs

Homepage:
Spack package:
Versions:
2.01-42, 2.01-40
Build Dependencies:
r, r-sp
Run Dependencies:
r, r-sp
Description:
Spatial and Space-Time Point Pattern Analysis. The Splancs package was written as an enhancement to S-Plus for display and analysis of spatial point pattern data; it has been ported to R and is in "maintenance mode".

r-splitstackshape

Homepage:
Spack package:
Versions:
1.4.8, 1.4.6, 1.4.4
Build Dependencies:
r, r-data-table
Run Dependencies:
r, r-data-table
Description:
Stack and Reshape Datasets After Splitting Concatenated Values. Online data collection tools like Google Forms often export multiple-response questions with data concatenated in cells. The concat.split (cSplit) family of functions splits such data into separate cells. The package also includes functions to stack groups of columns and to reshape wide data, even when the data are "unbalanced" something which reshape (from base R) does not handle, and which melt and dcast from reshape2 do not easily handle.

r-sqldf

Homepage:
Spack package:
Versions:
0.4-11
Build Dependencies:
r, r-gsubfn, r-proto, r-rsqlite, r-dbi, r-chron
Run Dependencies:
r, r-gsubfn, r-proto, r-rsqlite, r-dbi, r-chron
Description:
Manipulate R Data Frames Using SQL. The sqldf() function is typically passed a single argument which is an SQL select statement where the table names are ordinary R data frame names. sqldf() transparently sets up a database, imports the data frames into that database, performs the SQL select or other statement and returns the result using a heuristic to determine which class to assign to each column of the returned data frame. The sqldf() or read.csv.sql() functions can also be used to read filtered files into R even if the original files are larger than R itself can handle. 'RSQLite', 'RH2', 'RMySQL' and 'RPostgreSQL' backends are supported.

r-squarem

Homepage:
Spack package:
Versions:
2021.1, 2017.10-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms. Algorithms for accelerating the convergence of slow, monotone sequences from smooth, contraction mapping such as the EM algorithm. It can be used to accelerate any smooth, linearly convergent acceleration scheme. A tutorial style introduction to this package is available in a vignette on the CRAN download page or, when the package is loaded in an R session, with vignette("SQUAREM"). Refer to the J Stat Software article: <doi:10.18637/jss.v092.i07>.

r-squash

Homepage:
Spack package:
Versions:
1.0.9, 1.0.8, 1.0.7
Build Dependencies:
r
Run Dependencies:
r
Description:
Color-Based Plots for Multivariate Visualization. Functions for color- based visualization of multivariate data, i.e. colorgrams or heatmaps. Lower-level functions map numeric values to colors, display a matrix as an array of colors, and draw color keys. Higher-level plotting functions generate a bivariate histogram, a dendrogram aligned with a color-coded matrix, a triangular distance matrix, and more.

r-sseq

Homepage:
Spack package:
Versions:
1.32.0, 1.28.0, 1.22.0, 1.20.1, 1.18.0, 1.16.0, 1.14.0
Build Dependencies:
r, r-catools, r-rcolorbrewer
Run Dependencies:
r, r-catools, r-rcolorbrewer
Description:
Shrinkage estimation of dispersion in Negative Binomial models for RNA- seq experiments with small sample size. The purpose of this package is to discover the genes that are differentially expressed between two conditions in RNA-seq experiments. Gene expression is measured in counts of transcripts and modeled with the Negative Binomial (NB) distribution using a shrinkage approach for dispersion estimation. The method of moment (MM) estimates for dispersion are shrunk towards an estimated target, which minimizes the average squared difference between the shrinkage estimates and the initial estimates. The exact per-gene probability under the NB model is calculated, and used to test the hypothesis that the expected expression of a gene in two conditions identically follow a NB distribution.

r-stabledist

Homepage:
Spack package:
Versions:
0.7-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Stable Distribution Functions. Density, Probability and Quantile functions, and random number generation for (skew) stable distributions, using the parametrizations of Nolan.

r-stanheaders

Homepage:
Spack package:
Versions:
2.21.0-7, 2.21.0-6, 2.18.1-10, 2.18.1, 2.17.1, 2.10.0-2
Build Dependencies:
r, r-rcppparallel, r-rcppeigen, pandoc
Run Dependencies:
r, r-rcppparallel, r-rcppeigen
Description:
C++ Header Files for Stan. The C++ header files of the Stan project are provided by this package, but it contains no R code, vignettes, or function documentation. There is a shared object containing part of the CVODES library, but it is not accessible from R. StanHeaders is only useful for developers who want to utilize the LinkingTo directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or variational methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, templated statistical and linear algebra functions that can handle the automatically differentiable scalar types (and doubles, ints, etc.), and a parser for the Stan language. The 'rstan' package provides user-facing R functions to parse, compile, test, estimate, and analyze Stan models.

r-stargazer

Homepage:
Spack package:
Versions:
5.2.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Well-Formatted Regression and Summary Statistics Tables. Produces LaTeX code, HTML/CSS code and ASCII text for well-formatted tables that hold regression analysis results from several models side-by-side, as well as summary statistics.

r-statmod

Homepage:
Spack package:
Versions:
1.4.36, 1.4.35, 1.4.32, 1.4.30
Build Dependencies:
r
Run Dependencies:
r
Description:
Statistical Modeling. A collection of algorithms and functions to aid statistical modeling. Includes limiting dilution analysis (aka ELDA), growth curve comparisons, mixed linear models, heteroscedastic regression, inverse-Gaussian probability calculations, Gauss quadrature and a secure convergence algorithm for nonlinear models. Also includes advanced generalized linear model functions including Tweedie and Digamma distributional families and a secure convergence algorithm.

r-statnet-common

Homepage:
Spack package:
Versions:
4.5.0, 4.4.1, 4.3.0, 4.2.0, 3.3.0
Build Dependencies:
r, r-coda, r-rle
Run Dependencies:
r, r-coda, r-rle
Description:
Common R Scripts and Utilities Used by the Statnet Project Software. Non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.

r-stringfish

Homepage:
Spack package:
Versions:
0.15.5, 0.14.2
Build Dependencies:
r, r-rcpp, r-rcppparallel, gmake
Run Dependencies:
r, r-rcpp, r-rcppparallel
Description:
Alt String Implementation. Provides an extendable, performant and multithreaded 'alt-string' implementation backed by 'C++' vectors and strings.

r-stringi

Homepage:
Spack package:
Versions:
1.7.6, 1.6.2, 1.5.3, 1.4.3, 1.3.1, 1.1.5, 1.1.3, 1.1.2, 1.1.1
Build Dependencies:
r, icu4c
Link Dependencies:
icu4c
Run Dependencies:
r
Description:
Character String Processing Facilities. A multitude of character string/text/natural language processing tools: pattern searching (e.g., with 'Java'-like regular expressions or the 'Unicode' collation algorithm), random string generation, case mapping, string transliteration, concatenation, sorting, padding, wrapping, Unicode normalisation, date-time formatting and parsing, and many more. They are fast, consistent, convenient, and - owing to the use of the 'ICU' (International Components for Unicode) library - portable across all locales and platforms.

r-stringr

Homepage:
Spack package:
Versions:
1.4.0, 1.3.1, 1.2.0, 1.1.0, 1.0.0
Build Dependencies:
r, r-stringi, r-magrittr, r-glue
Run Dependencies:
r, r-stringi, r-magrittr, r-glue
Description:
Simple, Consistent Wrappers for Common String Operations. A consistent, simple and easy to use set of wrappers around the fantastic 'stringi' package. All function and argument names (and positions) are consistent, all functions deal with "NA"'s and zero length vectors in the same way, and the output from one function is easy to feed into the input of another.

r-strucchange

Homepage:
Spack package:
Versions:
1.5-2, 1.5-1
Build Dependencies:
r, r-zoo, r-sandwich
Run Dependencies:
r, r-zoo, r-sandwich
Description:
Testing, Monitoring, and Dating Structural Changes. Testing, monitoring and dating structural changes in (linear) regression models. strucchange features tests/methods from the generalized fluctuation test framework as well as from the F test (Chow test) framework. This includes methods to fit, plot and test fluctuation processes (e.g., CUSUM, MOSUM, recursive/moving estimates) and F statistics, respectively. It is possible to monitor incoming data online using fluctuation processes. Finally, the breakpoints in regression models with structural changes can be estimated together with confidence intervals. Emphasis is always given to methods for visualizing the data.

r-strucchangercpp

Homepage:
Spack package:
Versions:
1.5-3-1.0.4
Build Dependencies:
r, r-zoo, r-sandwich, r-rcpp, r-rcpparmadillo
Run Dependencies:
r, r-zoo, r-sandwich, r-rcpp, r-rcpparmadillo
Description:
Testing, Monitoring, and Dating Structural Changes: C++ Version. A fast implementation with additional experimental features for testing, monitoring and dating structural changes in (linear) regression models. 'strucchangeRcpp' features tests/methods from the generalized fluctuation test framework as well as from the F test (Chow test) framework. This includes methods to fit, plot and test fluctuation processes (e.g. cumulative/moving sum, recursive/moving estimates) and F statistics, respectively. These methods are described in Zeileis et al. (2002) <doi:10.18637/jss.v007.i02>. Finally, the breakpoints in regression models with structural changes can be estimated together with confidence intervals, and their magnitude as well as the model fit can be evaluated using a variety of statistical measures.

r-styler

Homepage:
Spack package:
Versions:
1.6.2, 1.3.2
Build Dependencies:
r, r-backports, r-cli, r-glue, r-magrittr, r-purrr, r-r-cache, r-rematch2, r-rlang, r-rprojroot, r-tibble, r-withr, r-xfun
Run Dependencies:
r, r-backports, r-cli, r-glue, r-magrittr, r-purrr, r-r-cache, r-rematch2, r-rlang, r-rprojroot, r-tibble, r-withr, r-xfun
Description:
Non-Invasive Pretty Printing of R Code. Pretty-prints R code without changing the user's formatting intent.

r-subplex

Homepage:
Spack package:
Versions:
1.7, 1.6, 1.5-4, 1.5-2, 1.4-1
Build Dependencies:
r
Run Dependencies:
r
Description:
Unconstrained Optimization using the Subplex Algorithm. The subplex algorithm for unconstrained optimization, developed by Tom Rowan <https://www.netlib.org/opt/subplex.tgz>.

r-summarizedexperiment

Homepage:
Spack package:
Versions:
1.24.0, 1.20.0, 1.18.2, 1.14.1, 1.12.0, 1.10.1, 1.8.1, 1.6.5
Build Dependencies:
r, r-matrixgenerics, r-genomicranges, r-biobase, r-matrix, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-delayedarray
Run Dependencies:
r, r-matrixgenerics, r-genomicranges, r-biobase, r-matrix, r-biocgenerics, r-s4vectors, r-iranges, r-genomeinfodb, r-delayedarray
Description:
SummarizedExperiment container. The SummarizedExperiment container contains one or more assays, each represented by a matrix-like object of numeric or other mode. The rows typically represent genomic ranges of interest and the columns represent samples.

r-suppdists

Homepage:
Spack package:
Versions:
1.1-9.7, 1.1-9.5
Build Dependencies:
r
Run Dependencies:
r
Description:
Supplementary Distributions. Ten distributions supplementing those built into R. Inverse Gauss, Kruskal-Wallis, Kendall's Tau, Friedman's chi squared, Spearman's rho, maximum F ratio, the Pearson product moment correlation coefficient, Johnson distributions, normal scores and generalized hypergeometric distributions.

r-survey

Homepage:
Spack package:
Versions:
4.1-1, 4.0, 3.36, 3.35-1, 3.30-3
Build Dependencies:
r, r-matrix, r-survival, r-lattice, r-minqa, r-numderiv, r-mitools
Run Dependencies:
r, r-matrix, r-survival, r-lattice, r-minqa, r-numderiv, r-mitools
Description:
Analysis of Complex Survey Samples. Summary statistics, two-sample tests, rank tests, generalised linear models, cumulative link models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two- phase subsampling designs. Graphics. PPS sampling without replacement. Principal components, factor analysis.

r-survival

Homepage:
Spack package:
Versions:
3.2-13, 3.2-7, 3.1-12, 2.44-1.1, 2.44-1, 2.41-3, 2.40-1, 2.39-5
Build Dependencies:
r, r-matrix
Run Dependencies:
r, r-matrix
Description:
Survival Analysis. Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models, and parametric accelerated failure time models.

r-sva

Homepage:
Spack package:
Versions:
3.42.0, 3.38.0, 3.32.1, 3.30.1, 3.28.0, 3.26.0, 3.24.4
Build Dependencies:
r, r-mgcv, r-genefilter, r-biocparallel, r-matrixstats, r-limma, r-edger
Run Dependencies:
r, r-mgcv, r-genefilter, r-biocparallel, r-matrixstats, r-limma, r-edger
Description:
Surrogate Variable Analysis. The sva package contains functions for removing batch effects and other unwanted variation in high-throughput experiment. Specifically, the sva package contains functions for the identifying and building surrogate variables for high-dimensional data sets. Surrogate variables are covariates constructed directly from high- dimensional data (like gene expression/RNA sequencing/methylation/brain imaging data) that can be used in subsequent analyses to adjust for unknown, unmodeled, or latent sources of noise. The sva package can be used to remove artifacts in three ways: (1) identifying and estimating surrogate variables for unknown sources of variation in high-throughput experiments (Leek and Storey 2007 PLoS Genetics,2008 PNAS), (2) directly removing known batch effects using ComBat (Johnson et al. 2007 Biostatistics) and (3) removing batch effects with known control probes (Leek 2014 biorXiv). Removing batch effects and using surrogate variables in differential expression analysis have been shown to reduce dependence, stabilize error rate estimates, and improve reproducibility, see (Leek and Storey 2007 PLoS Genetics, 2008 PNAS or Leek et al. 2011 Nat. Reviews Genetics).

r-svglite

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
r, r-systemfonts, r-cpp11, libpng
Link Dependencies:
libpng
Run Dependencies:
r, r-systemfonts, r-cpp11
Description:
An 'SVG' Graphics Device. A graphics device for R that produces 'Scalable Vector Graphics'. 'svglite' is a fork of the older 'RSvgDevice' package.

r-sys

Homepage:
Spack package:
Versions:
3.4, 3.2
Build Dependencies:
r
Run Dependencies:
r
Description:
Powerful and Reliable Tools for Running System Commands in R. Drop-in replacements for the base system2() function with fine control and consistent behavior across platforms. Supports clean interruption, timeout, background tasks, and streaming STDIN / STDOUT / STDERR over binary or text connections. Arguments on Windows automatically get encoded and quoted to work on different locales.

r-systemfonts

Homepage:
Spack package:
Versions:
1.0.3, 1.0.1
Build Dependencies:
r, r-cpp11, fontconfig, freetype
Link Dependencies:
fontconfig, freetype
Run Dependencies:
r, r-cpp11
Description:
System Native Font Finding. Provides system native access to the font catalogue. As font handling varies between systems it is difficult to correctly locate installed fonts across different operating systems. The 'systemfonts' package provides bindings to the native libraries on Windows, macOS and Linux for finding font files that can then be used further by e.g. graphic devices. The main use is intended to be from compiled code but 'systemfonts' also provides access from R.

r-tarifx

Homepage:
Spack package:
Versions:
1.0.6.2, 1.0.6.1, 1.0.6
Build Dependencies:
r, r-reshape2, r-plyr
Run Dependencies:
r, r-reshape2, r-plyr
Description:
Collection of Utility and Convenience Functions. A collection of various utility and convenience functions.

r-taxizedb

Homepage:
Spack package:
Versions:
0.3.0, 0.1.4
Build Dependencies:
r, r-curl, r-dbi, r-rsqlite, r-dplyr, r-tibble, r-rlang, r-readr, r-dbplyr, r-magrittr, r-hoardr, r-rpostgresql, r-rmysql
Run Dependencies:
r, r-curl, r-dbi, r-rsqlite, r-dplyr, r-tibble, r-rlang, r-readr, r-dbplyr, r-magrittr, r-hoardr, r-rpostgresql, r-rmysql
Description:
Tools for Working with 'Taxonomic' Databases. Tools for working with 'taxonomic' databases, including utilities for downloading databases, loading them into various 'SQL' databases, cleaning up files, and providing a 'SQL' connection that can be used to do 'SQL' queries directly or used in 'dplyr'.

r-tclust

Homepage:
Spack package:
Versions:
1.4-2, 1.4-1, 1.3-1, 1.2-7, 1.2-3, 1.1-03, 1.1-02
Build Dependencies:
r
Run Dependencies:
r
Description:
Robust Trimmed Clustering. Provides functions for robust trimmed clustering. The methods are described in Garcia-Escudero (2008) <doi:10.1214/07-AOS515>, Fritz et al. (2012) <doi:10.18637/jss.v047.i12>, Garcia-Escudero et al. (2011) <doi:10.1007/s11222-010-9194-z> and others.

r-teachingdemos

Homepage:
Spack package:
Versions:
2.12, 2.10
Build Dependencies:
r
Run Dependencies:
r
Description:
Demonstrations for Teaching and Learning. Demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.

r-tensor

Homepage:
Spack package:
Versions:
1.5, 1.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Tensor product of arrays. The tensor product of two arrays is notionally an outer product of the arrays collapsed in specific extents by summing along the appropriate diagonals.

r-tensora

Homepage:
Spack package:
Versions:
0.36.2, 0.36.1, 0.36
Build Dependencies:
r
Run Dependencies:
r
Description:
Advanced Tensor Arithmetic with Named Indices. Provides convenience functions for advanced linear algebra with tensors and computation with data sets of tensors on a higher level abstraction. It includes Einstein and Riemann summing conventions, dragging, co- and contravariate indices, parallel computations on sequences of tensors.

r-terra

Homepage:
Spack package:
Versions:
1.5-21, 1.5-17, 1.5-12, 1.4-22
Build Dependencies:
r, r-rcpp, gdal, geos, proj, sqlite
Link Dependencies:
gdal, geos, proj, sqlite
Run Dependencies:
r, r-rcpp
Description:
Spatial Data Analysis. Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is easier to use, and it is faster.

r-tester

Homepage:
Spack package:
Versions:
0.1.7
Build Dependencies:
r
Run Dependencies:
r
Description:
Tests and checks characteristics of R objects. tester allows you to test characteristics of common R objects.

r-testit

Homepage:
Spack package:
Versions:
0.13, 0.12, 0.9, 0.8, 0.7, 0.5
Build Dependencies:
r
Run Dependencies:
r
Description:
A Simple Package for Testing R Packages. Provides two convenience functions assert() and test_pkg() to facilitate testing R packages.

r-testthat

Homepage:
Spack package:
Versions:
3.1.2, 3.1.1, 3.0.1, 2.3.2, 2.2.1, 2.1.0, 1.0.2
Build Dependencies:
r, r-brio, r-callr, r-cli, r-crayon, r-desc, r-digest, r-ellipsis, r-evaluate, r-jsonlite, r-lifecycle, r-magrittr, r-pkgload, r-praise, r-processx, r-ps, r-r6, r-rlang, r-waldo, r-withr
Run Dependencies:
r, r-brio, r-callr, r-cli, r-crayon, r-desc, r-digest, r-ellipsis, r-evaluate, r-jsonlite, r-lifecycle, r-magrittr, r-pkgload, r-praise, r-processx, r-ps, r-r6, r-rlang, r-waldo, r-withr
Description:
Unit Testing for R. Software testing is important, but, in part because it is frustrating and boring, many of us avoid it. 'testthat' is a testing framework for R that is easy to learn and use, and integrates with your existing 'workflow'.

r-tfbstools

Homepage:
Spack package:
Versions:
1.32.0, 1.28.0, 1.22.0, 1.20.0, 1.18.0, 1.16.0, 1.14.2
Build Dependencies:
r, r-biobase, r-biostrings, r-biocgenerics, r-biocparallel, r-bsgenome, r-catools, r-cner, r-dirichletmultinomial, r-genomeinfodb, r-genomicranges, r-gtools, r-iranges, r-dbi, r-rsqlite, r-rtracklayer, r-seqlogo, r-s4vectors, r-tfmpvalue, r-xml, r-xvector
Run Dependencies:
r, r-biobase, r-biostrings, r-biocgenerics, r-biocparallel, r-bsgenome, r-catools, r-cner, r-dirichletmultinomial, r-genomeinfodb, r-genomicranges, r-gtools, r-iranges, r-dbi, r-rsqlite, r-rtracklayer, r-seqlogo, r-s4vectors, r-tfmpvalue, r-xml, r-xvector
Description:
Software Package for Transcription Factor Binding Site (TFBS) Analysis. TFBSTools is a package for the analysis and manipulation of transcription factor binding sites. It includes matrices conversion between Position Frequency Matirx (PFM), Position Weight Matirx (PWM) and Information Content Matrix (ICM). It can also scan putative TFBS from sequence/alignment, query JASPAR database and provides a wrapper of de novo motif discovery software.

r-tfisher

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
r, r-sn, r-mvtnorm, r-matrix
Run Dependencies:
r, r-sn, r-mvtnorm, r-matrix
Description:
Optimal Thresholding Fisher's P-Value Combination Method. We provide the cumulative distribution function (CDF), quantile, and statistical power calculator for a collection of thresholding Fisher's p-value combination methods, including Fisher's p-value combination method, truncated product method and, in particular, soft-thresholding Fisher's p-value combination method which is proven to be optimal in some context of signal detection. The p-value calculator for the omnibus version of these tests are also included. For reference, please see Hong Zhang and Zheyang Wu. "TFisher Tests: Optimal and Adaptive Thresholding for Combining p-Values", submitted.

r-tfmpvalue

Homepage:
Spack package:
Versions:
0.0.8, 0.0.6
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
Efficient and Accurate P-Value Computation for Position Weight Matrices. In putative Transcription Factor Binding Sites (TFBSs) identification from sequence/alignments, we are interested in the significance of certain match score. TFMPvalue provides the accurate calculation of P-value with score threshold for Position Weight Matrices, or the score with given P-value. This package is an interface to code originally made available by Helene Touzet and Jean-Stephane Varre, 2007, Algorithms Mol Biol:2, 15.

r-th-data

Homepage:
Spack package:
Versions:
1.1-0, 1.0-10, 1.0-9, 1.0-8, 1.0-7
Build Dependencies:
r, r-survival, r-mass
Run Dependencies:
r, r-survival, r-mass
Description:
TH's Data Archive. Contains data sets used in other packages Torsten Hothorn maintains.

r-threejs

Homepage:
Spack package:
Versions:
0.3.3, 0.3.1, 0.2.2
Build Dependencies:
r, r-igraph, r-htmlwidgets, r-base64enc, r-crosstalk, r-matrix, r-jsonlite
Run Dependencies:
r, r-igraph, r-htmlwidgets, r-base64enc, r-crosstalk, r-matrix, r-jsonlite
Description:
Interactive 3D Scatter Plots, Networks and Globes. Create interactive 3D scatter plots, network plots, and globes using the 'three.js' visualization library ("https://threejs.org/").

r-tibble

Homepage:
Spack package:
Versions:
3.1.6, 3.1.5, 3.0.5, 2.1.3, 2.0.1, 2.0.0, 1.4.2, 1.4.1, 1.3.4, 1.2, 1.1
Build Dependencies:
r, r-ellipsis, r-fansi, r-lifecycle, r-magrittr, r-pillar, r-pkgconfig, r-rlang, r-vctrs, r-cli, r-crayon, r-assertthat, r-lazyeval, r-rcpp
Run Dependencies:
r, r-ellipsis, r-fansi, r-lifecycle, r-magrittr, r-pillar, r-pkgconfig, r-rlang, r-vctrs, r-cli, r-crayon, r-assertthat, r-lazyeval, r-rcpp
Description:
Simple Data Frames. Provides a 'tbl_df' class (the 'tibble') that provides stricter checking and better formatting than the traditional data frame.

r-tictoc

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Functions for timing R scripts, as well as implementations of Stack and List structures. This package provides the timing functions 'tic' and 'toc' that can be nested. One can record all timings while a complex script is running, and examine the values later. It is also possible to instrument the timing calls with custom callbacks. In addition, this package provides class 'Stack', implemented as a vector, and class 'List', implemented as a list, both of which support operations 'push', 'pop', 'first', 'last' and 'clear'.

r-tidycensus

Homepage:
Spack package:
Versions:
1.1, 0.11, 0.9.2, 0.3.1
Build Dependencies:
r, r-httr, r-sf, r-dplyr, r-tigris, r-stringr, r-jsonlite, r-purrr, r-rvest, r-tidyr, r-rappdirs, r-readr, r-xml2, r-units, r-rlang, r-crayon
Run Dependencies:
r, r-httr, r-sf, r-dplyr, r-tigris, r-stringr, r-jsonlite, r-purrr, r-rvest, r-tidyr, r-rappdirs, r-readr, r-xml2, r-units, r-rlang, r-crayon
Description:
Load US Census Boundary and Attribute Data as 'tidyverse' and 'sf'-Ready Data Frames. An integrated R interface to the decennial US Census and American Community Survey APIs and the US Census Bureau's geographic boundary files. Allows R users to return Census and ACS data as tidyverse-ready data frames, and optionally returns a list-column with feature geometry for all Census geographies.

r-tidygraph

Homepage:
Spack package:
Versions:
1.2.0, 1.1.2
Build Dependencies:
r, r-tibble, r-dplyr, r-igraph, r-magrittr, r-rlang, r-r6, r-rcpp, r-tidyr, r-pillar
Run Dependencies:
r, r-tibble, r-dplyr, r-igraph, r-magrittr, r-rlang, r-r6, r-rcpp, r-tidyr, r-pillar
Description:
A Tidy API for Graph Manipulation. A graph, while not "tidy" in itself, can be thought of as two tidy data frames describing node and edge data respectively. 'tidygraph' provides an approach to manipulate these two virtual data frames using the API defined in the 'dplyr' package, as well as provides tidy interfaces to a lot of common graph algorithms.

r-tidyr

Homepage:
Spack package:
Versions:
1.1.4, 1.1.2, 0.8.3, 0.8.2, 0.7.2, 0.5.1
Build Dependencies:
r, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-magrittr, r-purrr, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-cpp11, r-stringi, r-rcpp
Run Dependencies:
r, r-dplyr, r-ellipsis, r-glue, r-lifecycle, r-magrittr, r-purrr, r-rlang, r-tibble, r-tidyselect, r-vctrs, r-cpp11, r-stringi, r-rcpp
Description:
Tidy Messy Data. Tools to help to create tidy data, where each column is a variable, each row is an observation, and each cell contains a single value. 'tidyr' contains tools for changing the shape (pivoting) and hierarchy (nesting and 'unnesting') of a dataset, turning deeply nested lists into rectangular data frames ('rectangling'), and extracting values out of string columns. It also includes tools for working with missing values (both implicit and explicit).

r-tidyselect

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0, 0.2.5, 0.2.4, 0.2.3
Build Dependencies:
r, r-ellipsis, r-glue, r-purrr, r-rlang, r-vctrs, r-rcpp
Run Dependencies:
r, r-ellipsis, r-glue, r-purrr, r-rlang, r-vctrs, r-rcpp
Description:
Select from a Set of Strings. A backend for the selecting functions of the 'tidyverse'. It makes it easy to implement select-like functions in your own packages in a way that is consistent with other 'tidyverse' interfaces for selection.

r-tidytree

Homepage:
Spack package:
Versions:
0.3.7
Build Dependencies:
r, r-ape, r-dplyr, r-lazyeval, r-magrittr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-yulab-utils
Run Dependencies:
r, r-ape, r-dplyr, r-lazyeval, r-magrittr, r-rlang, r-tibble, r-tidyr, r-tidyselect, r-yulab-utils
Description:
A Tidy Tool for Phylogenetic Tree Data Manipulation. Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data.

r-tidyverse

Homepage:
Spack package:
Versions:
1.3.1, 1.3.0, 1.2.1
Build Dependencies:
r, r-broom, r-cli, r-crayon, r-dbplyr, r-dplyr, r-dtplyr, r-forcats, r-googledrive, r-googlesheets4, r-ggplot2, r-haven, r-hms, r-httr, r-jsonlite, r-lubridate, r-magrittr, r-modelr, r-pillar, r-purrr, r-readr, r-readxl, r-reprex, r-rlang, r-rstudioapi, r-rvest, r-stringr, r-tibble, r-tidyr, r-xml2
Run Dependencies:
r, r-broom, r-cli, r-crayon, r-dbplyr, r-dplyr, r-dtplyr, r-forcats, r-googledrive, r-googlesheets4, r-ggplot2, r-haven, r-hms, r-httr, r-jsonlite, r-lubridate, r-magrittr, r-modelr, r-pillar, r-purrr, r-readr, r-readxl, r-reprex, r-rlang, r-rstudioapi, r-rvest, r-stringr, r-tibble, r-tidyr, r-xml2
Description:
Easily Install and Load the 'Tidyverse'. The 'tidyverse' is a set of packages that work in harmony because they share common data representations and 'API' design. This package is designed to make it easy to install and load multiple 'tidyverse' packages in a single step. Learn more about the 'tidyverse' at <https://tidyverse.org>.

r-tiff

Homepage:
Spack package:
Versions:
0.1-11, 0.1-10, 0.1-6, 0.1-5
Build Dependencies:
r, libtiff, jpeg
Link Dependencies:
libtiff, jpeg
Run Dependencies:
r
Description:
Read and write TIFF images. This package provides an easy and simple way to read, write and display bitmap images stored in the TIFF format. It can read and write both files and in-memory raw vectors.

r-tigris

Homepage:
Spack package:
Versions:
1.5, 1.0, 0.8.2, 0.5.3
Build Dependencies:
r, r-stringr, r-magrittr, r-rgdal, r-sp, r-rappdirs, r-maptools, r-httr, r-uuid, r-sf, r-dplyr, r-rgeos
Run Dependencies:
r, r-stringr, r-magrittr, r-rgdal, r-sp, r-rappdirs, r-maptools, r-httr, r-uuid, r-sf, r-dplyr, r-rgeos
Description:
Load Census TIGER/Line Shapefiles. Download TIGER/Line shapefiles from the United States Census Bureau and load into R as 'SpatialDataFrame' or 'sf' objects.

r-timedate

Homepage:
Spack package:
Versions:
3043.102, 3042.101, 3012.100
Build Dependencies:
r
Run Dependencies:
r
Description:
Rmetrics - Chronological and Calendar Objects. The 'timeDate' class fulfils the conventions of the ISO 8601 standard as well as of the ANSI C and POSIX standards. Beyond these standards it provides the "Financial Center" concept which allows to handle data records collected in different time zones and mix them up to have always the proper time stamps with respect to your personal financial center, or alternatively to the GMT reference time. It can thus also handle time stamps from historical data records from the same time zone, even if the financial centers changed day light saving times at different calendar dates.

r-tinytex

Homepage:
Spack package:
Versions:
0.37, 0.36, 0.32, 0.28, 0.15
Build Dependencies:
r, r-xfun
Run Dependencies:
r, r-xfun
Description:
Helper Functions to Install and Maintain TeX Live, and Compile LaTeX Documents. Helper functions to install and maintain the 'LaTeX' distribution named 'TinyTeX' (<https://yihui.name/tinytex/>), a lightweight, cross-platform, portable, and easy-to-maintain version of 'TeX Live'. This package also contains helper functions to compile 'LaTeX' documents, and install missing 'LaTeX' packages automatically.

r-tmixclust

Homepage:
Spack package:
Versions:
1.16.0, 1.12.0, 1.6.0, 1.4.0, 1.2.0, 1.0.1
Build Dependencies:
r, r-gss, r-mvtnorm, r-zoo, r-cluster, r-biocparallel, r-flexclust, r-biobase, r-spem
Run Dependencies:
r, r-gss, r-mvtnorm, r-zoo, r-cluster, r-biocparallel, r-flexclust, r-biobase, r-spem
Description:
Time Series Clustering of Gene Expression with Gaussian Mixed-Effects Models and Smoothing Splines. Implementation of a clustering method for time series gene expression data based on mixed-effects models with Gaussian variables and non- parametric cubic splines estimation. The method can robustly account for the high levels of noise present in typical gene expression time series datasets.

r-tmvnsim

Homepage:
Spack package:
Versions:
1.0-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Truncated Multivariate Normal Simulation. Importance sampling from the truncated multivariate normal using the GHK (Geweke-Hajivassiliou-Keane) simulator. Unlike Gibbs sampling which can get stuck in one truncation sub-region depending on initial values, this package allows truncation based on disjoint regions that are created by truncation of absolute values. The GHK algorithm uses simple Cholesky transformation followed by recursive simulation of univariate truncated normals hence there are also no convergence issues. Importance sample is returned along with sampling weights, based on which, one can calculate integrals over truncated regions for multivariate normals.

r-topgo

Homepage:
Spack package:
Versions:
2.46.0, 2.42.0, 2.36.0, 2.34.0, 2.32.0, 2.30.1, 2.28.0
Build Dependencies:
r, r-biocgenerics, r-graph, r-biobase, r-go-db, r-annotationdbi, r-sparsem, r-lattice, r-matrixstats, r-dbi
Run Dependencies:
r, r-biocgenerics, r-graph, r-biobase, r-go-db, r-annotationdbi, r-sparsem, r-lattice, r-matrixstats, r-dbi
Description:
Enrichment Analysis for Gene Ontology. topGO package provides tools for testing GO terms while accounting for the topology of the GO graph. Different test statistics and different methods for eliminating local similarities and dependencies between GO terms can be implemented and applied.

r-treeio

Homepage:
Spack package:
Versions:
1.18.1
Build Dependencies:
r, r-ape, r-dplyr, r-jsonlite, r-magrittr, r-rlang, r-tibble, r-tidytree
Run Dependencies:
r, r-ape, r-dplyr, r-jsonlite, r-magrittr, r-rlang, r-tibble, r-tidytree
Description:
Base Classes and Functions for Phylogenetic Tree Input and Output. 'treeio' is an R package to make it easier to import and store phylogenetic tree with associated data; and to link external data from different sources to phylogeny. It also supports exporting phylogenetic tree with heterogeneous associated data to a single tree file and can be served as a platform for merging tree with associated data and converting file formats.

r-triebeard

Homepage:
Spack package:
Versions:
0.3.0
Build Dependencies:
r, r-rcpp
Run Dependencies:
r, r-rcpp
Description:
'Radix' Trees in 'Rcpp'. 'Radix trees', or 'tries', are key-value data structures optimised for efficient lookups, similar in purpose to hash tables. 'triebeard' provides an implementation of 'radix trees' for use in R programming and in developing packages with 'Rcpp'.

r-trimcluster

Homepage:
Spack package:
Versions:
0.1-5, 0.1-2.1, 0.1-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Cluster analysis with trimming. Trimmed k-means clustering. The method is described in Cuesta-Albertos et al. (1997) <doi:10.1214/aos/1031833664>.

r-truncdist

Homepage:
Spack package:
Versions:
1.0-2
Build Dependencies:
r, r-evd
Run Dependencies:
r, r-evd
Description:
Truncated Random Variables. A collection of tools to evaluate probability density functions, cumulative distribution functions, quantile functions and random numbers for truncated random variables. These functions are provided to also compute the expected value and variance. Nadarajah and Kotz (2006) developed most of the functions. QQ plots can be produced. All the probability functions in the stats, stats4 and evd packages are automatically available for truncation.

r-truncnorm

Homepage:
Spack package:
Versions:
1.0-8
Build Dependencies:
r
Run Dependencies:
r
Description:
Truncated Normal Distribution. Density, probability, quantile and random number generation functions for the truncated normal distribution.

r-trust

Homepage:
Spack package:
Versions:
0.1-8, 0.1-7
Build Dependencies:
r
Run Dependencies:
r
Description:
Trust Region Optimization. Does local optimization using two derivatives and trust regions. Guaranteed to converge to local minimum of objective function.

r-tseries

Homepage:
Spack package:
Versions:
0.10-49, 0.10-48, 0.10-47, 0.10-46, 0.10-42
Build Dependencies:
r, r-quadprog, r-zoo, r-quantmod
Run Dependencies:
r, r-quadprog, r-zoo, r-quantmod
Description:
Time series analysis and computational finance.

r-tsne

Homepage:
Spack package:
Versions:
0.1-3, 0.1-2, 0.1-1
Build Dependencies:
r
Run Dependencies:
r
Description:
T-Distributed Stochastic Neighbor Embedding for R (t-SNE). A "pure R" implementation of the t-SNE algorithm.

r-ttr

Homepage:
Spack package:
Versions:
0.24.3, 0.24.2, 0.23-4, 0.23-3, 0.23-1
Build Dependencies:
r, r-xts, r-zoo, r-curl
Run Dependencies:
r, r-xts, r-zoo, r-curl
Description:
Technical Trading Rules. A collection of over 50 technical indicators for creating technical trading rules. The package also provides fast implementations of common rolling-window functions, and several volatility calculations.

r-tweenr

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1
Build Dependencies:
r, r-rcpp, r-farver, r-magrittr, r-rlang
Run Dependencies:
r, r-rcpp, r-farver, r-magrittr, r-rlang
Description:
Interpolate Data for Smooth Animations. In order to create smooth animation between states of data, tweening is necessary. This package provides a range of functions for creating tweened data that can be used as basis for animation. Furthermore it adds a number of vectorized interpolaters for common R data types such as numeric, date and colour.

r-txdb-hsapiens-ucsc-hg18-knowngene

Homepage:
Spack package:
Versions:
3.2.2
Build Dependencies:
r, r-genomicfeatures, r-annotationdbi
Run Dependencies:
r, r-genomicfeatures, r-annotationdbi
Description:
Annotation package for TxDb object(s). Exposes an annotation databases generated from UCSC by exposing these as TxDb objects

r-txdb-hsapiens-ucsc-hg19-knowngene

Homepage:
Spack package:
Versions:
3.2.2
Build Dependencies:
r, r-genomicfeatures, r-annotationdbi
Run Dependencies:
r, r-genomicfeatures, r-annotationdbi
Description:
Annotation package for TxDb object(s). Exposes an annotation databases generated from UCSC by exposing these as TxDb objects.

r-tximport

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0, 1.12.3, 1.10.1, 1.8.0, 1.6.0, 1.4.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Import and summarize transcript-level estimates for transcript- and gene-level analysis. Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample- specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.

r-tximportdata

Homepage:
Spack package:
Versions:
1.22.0, 1.18.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Import and summarize transcript-level estimates for transcript- and gene-level analysis. Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.

r-tzdb

Homepage:
Spack package:
Versions:
0.2.0
Build Dependencies:
r, r-cpp11
Run Dependencies:
r, r-cpp11
Description:
Time Zone Database Information. Provides an up-to-date copy of the Internet Assigned Numbers Authority (IANA) Time Zone Database. It is updated periodically to reflect changes made by political bodies to time zone boundaries, UTC offsets, and daylight saving time rules. Additionally, this package provides a C++ interface for working with the 'date' library. 'date' provides comprehensive support for working with dates and date-times, which this package exposes to make it easier for other R packages to utilize. Headers are provided for calendar specific calculations, along with a limited interface for time zone manipulations.

r-ucminf

Homepage:
Spack package:
Versions:
1.1-4
Build Dependencies:
r
Run Dependencies:
r
Description:
General-Purpose Unconstrained Non-Linear Optimization. An algorithm for general-purpose unconstrained non-linear optimization. The algorithm is of quasi-Newton type with BFGS updating of the inverse Hessian and soft line search with a trust region type monitoring of the input to the line search algorithm. The interface of 'ucminf' is designed for easy interchange with 'optim'.

r-udunits2

Homepage:
Spack package:
Versions:
0.13.2, 0.13
Build Dependencies:
r, udunits
Link Dependencies:
udunits
Run Dependencies:
r
Description:
Udunits-2 Bindings for R. Provides simple bindings to Unidata's udunits library.

r-units

Homepage:
Spack package:
Versions:
0.8-0, 0.7-2, 0.6-7, 0.6-3, 0.6-2, 0.4-6
Build Dependencies:
r, r-rcpp, udunits, r-udunits2
Link Dependencies:
udunits
Run Dependencies:
r, r-rcpp, r-udunits2
Description:
Measurement Units for R Vectors. Support for measurement units in R vectors, matrices and arrays: automatic propagation, conversion, derivation and simplification of units; raising errors in case of unit incompatibility. Compatible with the POSIXct, Date and difftime classes. Uses the UNIDATA udunits library and unit database for unit compatibility checking and conversion. Documentation about 'units' is provided in the paper by Pebesma, Mailund & Hiebert (2016, <doi:10.32614/RJ-2016-061>), included in this package as a vignette; see 'citation("units")' for details.

r-upsetr

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
r, r-ggplot2, r-gridextra, r-plyr, r-scales
Run Dependencies:
r, r-ggplot2, r-gridextra, r-plyr, r-scales
Description:
A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets. Creates visualizations of intersecting sets using a novel matrix design, along with visualizations of several common set, element and attribute related tasks (Conway 2017) <doi:10.1093/bioinformatics/btx364>.

r-urca

Homepage:
Spack package:
Versions:
1.3-0
Build Dependencies:
r, r-nlme
Run Dependencies:
r, r-nlme
Description:
Unit Root and Cointegration Tests for Time Series Data. Unit root and cointegration tests encountered in applied econometric analysis are implemented.

r-urltools

Homepage:
Spack package:
Versions:
1.7.3
Build Dependencies:
r, r-rcpp, r-triebeard
Run Dependencies:
r, r-rcpp, r-triebeard
Description:
Vectorised Tools for URL Handling and Parsing. A toolkit for all URL- handling needs, including encoding and decoding, parsing, parameter extraction and modification. All functions are designed to be both fast and entirely vectorised. It is intended to be useful for people dealing with web-related datasets, such as server-side logs, although may be useful for other situations involving large sets of URLs.

r-usethis

Homepage:
Spack package:
Versions:
2.1.5, 2.0.0, 1.6.1, 1.5.1
Build Dependencies:
r, r-cli, r-clipr, r-crayon, r-curl, r-desc, r-fs, r-gert, r-gh, r-glue, r-jsonlite, r-lifecycle, r-purrr, r-rappdirs, r-rlang, r-rprojroot, r-rstudioapi, r-whisker, r-withr, r-yaml, r-clisymbols, r-git2r, r-rematch2
Run Dependencies:
r, r-cli, r-clipr, r-crayon, r-curl, r-desc, r-fs, r-gert, r-gh, r-glue, r-jsonlite, r-lifecycle, r-purrr, r-rappdirs, r-rlang, r-rprojroot, r-rstudioapi, r-whisker, r-withr, r-yaml, r-clisymbols, r-git2r, r-rematch2
Description:
Automate Package and Project Setup. Automate package and project setup tasks that are otherwise performed manually. This includes setting up unit testing, test coverage, continuous integration, Git, 'GitHub', licenses, 'Rcpp', 'RStudio' projects, and more.

r-utf8

Homepage:
Spack package:
Versions:
1.2.2, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Unicode Text Processing. Process and print 'UTF-8' encoded international text (Unicode). Input, validate, normalize, encode, format, and display.

r-uuid

Homepage:
Spack package:
Versions:
1.0-3, 0.1-4, 0.1-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Tools for Generating and Handling of UUIDs. Tools for generating and handling of UUIDs (Universally Unique Identifiers).

r-uwot

Homepage:
Spack package:
Versions:
0.1.11, 0.1.10, 0.1.3
Build Dependencies:
r, r-matrix, r-rcpp, r-fnn, r-rspectra, r-rcppannoy, r-irlba, r-rcppprogress, r-dqrng, r-rcppparallel, gmake
Run Dependencies:
r, r-matrix, r-rcpp, r-fnn, r-rspectra, r-rcppannoy, r-irlba, r-rcppprogress, r-dqrng, r-rcppparallel
Description:
The Uniform Manifold Approximation and Projection (UMAP) Method for Dimensionality Reduction. An implementation of the Uniform Manifold Approximation and Projection dimensionality reduction by McInnes et al. (2018) <arXiv:1802.03426>. It also provides means to transform new data and to carry out supervised dimensionality reduction. An implementation of the related LargeVis method of Tang et al. (2016) <arXiv:1602.00370> is also provided. This is a complete re-implementation in R (and C++, via the 'Rcpp' package): no Python installation is required. See the uwot website (<https://github.com/jlmelville/uwot>) for more documentation and examples.

r-v8

Homepage:
Spack package:
Versions:
4.0.0, 3.6.0, 3.4.0
Build Dependencies:
r, r-rcpp, r-jsonlite, r-curl
Run Dependencies:
r, r-rcpp, r-jsonlite, r-curl
Description:
Embedded JavaScript and WebAssembly Engine for R. An R interface to V8: Google's open source JavaScript and WebAssembly engine. This package can be compiled either with V8 version 6 and up or NodeJS when built as a shared library.

r-variantannotation

Homepage:
Spack package:
Versions:
1.40.0, 1.36.0, 1.30.1, 1.28.13, 1.26.1, 1.24.5, 1.22.3
Build Dependencies:
r, r-biocgenerics, r-matrixgenerics, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-rsamtools, r-dbi, r-zlibbioc, r-biobase, r-s4vectors, r-iranges, r-xvector, r-biostrings, r-annotationdbi, r-rtracklayer, r-bsgenome, r-genomicfeatures, r-rhtslib, gmake, curl
Link Dependencies:
curl
Run Dependencies:
r, r-biocgenerics, r-matrixgenerics, r-genomeinfodb, r-genomicranges, r-summarizedexperiment, r-rsamtools, r-dbi, r-zlibbioc, r-biobase, r-s4vectors, r-iranges, r-xvector, r-biostrings, r-annotationdbi, r-rtracklayer, r-bsgenome, r-genomicfeatures, r-rhtslib
Description:
Annotation of Genetic Variants. Annotate variants, compute amino acid coding changes, predict coding outcomes.

r-varselrf

Homepage:
Spack package:
Versions:
0.7-8
Build Dependencies:
r, r-randomforest
Run Dependencies:
r, r-randomforest
Description:
Variable Selection using Random Forests. Variable selection from random forests using both backwards variable elimination (for the selection of small sets of non-redundant variables) and selection based on the importance spectrum (somewhat similar to scree plots; for the selection of large, potentially highly-correlated variables). Main applications in high-dimensional data (e.g., microarray data, and other genomics and proteomics applications).

r-vcd

Homepage:
Spack package:
Versions:
1.4-9, 1.4-8, 1.4-4, 1.4-3, 1.4-1
Build Dependencies:
r, r-mass, r-colorspace, r-lmtest
Run Dependencies:
r, r-mass, r-colorspace, r-lmtest
Description:
Visualizing Categorical Data. Visualization techniques, data sets, summary and inference procedures aimed particularly at categorical data. Special emphasis is given to highly extensible grid graphics. The package was package was originally inspired by the book "Visualizing Categorical Data" by Michael Friendly and is now the main support package for a new book, "Discrete Data Analysis with R" by Michael Friendly and David Meyer (2015).

r-vcfr

Homepage:
Spack package:
Versions:
1.12.0
Build Dependencies:
r, r-ape, r-dplyr, r-magrittr, r-memuse, r-pinfsc50, r-rcpp, r-stringr, r-tibble, r-vegan, r-viridislite, zlib
Link Dependencies:
zlib
Run Dependencies:
r, r-ape, r-dplyr, r-magrittr, r-memuse, r-pinfsc50, r-rcpp, r-stringr, r-tibble, r-vegan, r-viridislite
Description:
Manipulate and Visualize VCF Data. Facilitates easy manipulation of variant call format (VCF) data. Functions are provided to rapidly read from and write to VCF files. Once VCF data is read into R a parser function extracts matrices of data. This information can then be used for quality control or other purposes. Additional functions provide visualization of genomic data. Once processing is complete data may be written to a VCF file (*.vcf.gz). It also may be converted into other popular R objects (e.g., genlight, DNAbin). VcfR provides a link between VCF data and familiar R software.

r-vctrs

Homepage:
Spack package:
Versions:
0.3.8, 0.3.6, 0.3.5, 0.2.0
Build Dependencies:
r, r-ellipsis, r-glue, r-rlang, r-digest, r-zeallot
Run Dependencies:
r, r-ellipsis, r-glue, r-rlang, r-digest, r-zeallot
Description:
Vector Helpers. Defines new notions of prototype and size that are used to provide tools for consistent and well-founded type-coercion and size- recycling, and are in turn connected to ideas of type- and size- stability useful for analyzing function interfaces.

r-vegan

Homepage:
Spack package:
Versions:
2.5-7, 2.5-5, 2.5-4, 2.4-3
Build Dependencies:
r, r-permute, r-lattice, r-mass, r-cluster, r-mgcv
Run Dependencies:
r, r-permute, r-lattice, r-mass, r-cluster, r-mgcv
Description:
Community Ecology Package. Ordination methods, diversity analysis and other functions for community and vegetation ecologists.

r-vfs

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
r, r-e1071, r-nleqslv
Run Dependencies:
r, r-e1071, r-nleqslv
Description:
Vegetated Filter Strip and Erosion Model. Empirical models for runoff, erosion, and phosphorus loss across a vegetated filter strip, given slope, soils, climate, and vegetation (Gall et al., 2018) <doi:10.1007/s00477-017-1505-x>. It also includes functions for deriving climate parameters from measured daily weather data, and for simulating rainfall. Models implemented include MUSLE (Williams, 1975) and APLE (Vadas et al., 2009 <doi:10.2134/jeq2008.0337>).

r-vgam

Homepage:
Spack package:
Versions:
1.1-5, 1.1-1, 1.0-6, 1.0-4, 1.0-3, 1.0-2, 1.0-1, 1.0-0
Build Dependencies:
r
Run Dependencies:
r
Description:
Vector Generalized Linear and Additive Models. An implementation of about 6 major classes of statistical regression models. The central algorithm is Fisher scoring and iterative reweighted least squares. At the heart of this package are the vector generalized linear and additive model (VGLM/VGAM) classes. VGLMs can be loosely thought of as multivariate GLMs. VGAMs are data-driven VGLMs that use smoothing. The book "Vector Generalized Linear and Additive Models: With an Implementation in R" (Yee, 2015) <DOI:10.1007/978-1-4939-2818-7> gives details of the statistical framework and the package. Currently only fixed-effects models are implemented. Many (150+) models and distributions are estimated by maximum likelihood estimation (MLE) or penalized MLE. The other classes are RR-VGLMs (reduced-rank VGLMs), quadratic RR-VGLMs, reduced-rank VGAMs, RCIMs (row-column interaction models)---these classes perform constrained and unconstrained quadratic ordination (CQO/UQO) models in ecology, as well as constrained additive ordination (CAO). Hauck-Donner effect detection is implemented. Note that these functions are subject to change; see the NEWS and ChangeLog files for latest changes.

r-vioplot

Homepage:
Spack package:
Versions:
0.3.7, 0.3.5, 0.3.2
Build Dependencies:
r, r-sm, r-zoo
Run Dependencies:
r, r-sm, r-zoo
Description:
Violin Plot. A violin plot is a combination of a box plot and a kernel density plot. This package allows extensive customisation of violin plots.

r-vipor

Homepage:
Spack package:
Versions:
0.4.5, 0.4.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Plot Categorical Data Using Quasirandom Noise and Density Estimates. Generate a violin point plot, a combination of a violin/histogram plot and a scatter plot by offsetting points within a category based on their density using quasirandom noise.

r-viridis

Homepage:
Spack package:
Versions:
0.6.2, 0.5.1, 0.5.0, 0.4.0
Build Dependencies:
r, r-viridislite, r-ggplot2, r-gridextra
Run Dependencies:
r, r-viridislite, r-ggplot2, r-gridextra
Description:
Colorblind-Friendly Color Maps for R. Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. The color maps are also perceptually- uniform, both in regular form and also when converted to black-and-white for printing. This package also contains 'ggplot2' bindings for discrete and continuous color and fill scales. A lean version of the package called 'viridisLite' that does not include the 'ggplot2' bindings can be found at <https://cran.r-project.org/package=viridisLite>.

r-viridislite

Homepage:
Spack package:
Versions:
0.4.0, 0.3.0, 0.2.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Colorblind-Friendly Color Maps (Lite Version). Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. The color maps are also perceptually-uniform, both in regular form and also when converted to black-and-white for printing. This is the 'lite' version of the 'viridis' package that also contains 'ggplot2' bindings for discrete and continuous color and fill scales and can be found at <https://cran.r-project.org/package=viridis>.

r-visnetwork

Homepage:
Spack package:
Versions:
2.1.0, 2.0.9, 2.0.7, 2.0.6, 1.0.1
Build Dependencies:
r, r-htmlwidgets, r-htmltools, r-jsonlite, r-magrittr
Run Dependencies:
r, r-htmlwidgets, r-htmltools, r-jsonlite, r-magrittr
Description:
Network Visualization using 'vis.js' Library. Provides an R interface to the 'vis.js' JavaScript charting library. It allows an interactive visualization of networks.

r-vroom

Homepage:
Spack package:
Versions:
1.5.7, 1.5.5
Build Dependencies:
r, r-bit64, r-crayon, r-cli, r-glue, r-hms, r-lifecycle, r-rlang, r-tibble, r-tzdb, r-vctrs, r-tidyselect, r-withr, r-progress, r-cpp11
Run Dependencies:
r, r-bit64, r-crayon, r-cli, r-glue, r-hms, r-lifecycle, r-rlang, r-tibble, r-tzdb, r-vctrs, r-tidyselect, r-withr, r-progress, r-cpp11
Description:
Read and Write Rectangular Text Data Quickly. The goal of 'vroom' is to read and write data (like 'csv', 'tsv' and 'fwf') quickly. When reading it uses a quick initial indexing step, then reads the values lazily , so only the data you actually use needs to be read. The writer formats the data in parallel and writes to disk asynchronously from formatting.

r-vsn

Homepage:
Spack package:
Versions:
3.62.0, 3.58.0, 3.52.0, 3.50.0, 3.48.1, 3.46.0, 3.44.0
Build Dependencies:
r, r-biobase, r-affy, r-limma, r-lattice, r-ggplot2, r-hexbin
Run Dependencies:
r, r-biobase, r-affy, r-limma, r-lattice, r-ggplot2, r-hexbin
Description:
Variance stabilization and calibration for microarray data. The package implements a method for normalising microarray intensities, and works for single- and multiple-color arrays. It can also be used for data from other technologies, as long as they have similar format. The method uses a robust variant of the maximum-likelihood estimator for an additive- multiplicative error model and affine calibration. The model incorporates data calibration step (a.k.a. normalization), a model for the dependence of the variance on the mean intensity and a variance stabilizing data transformation. Differences between transformed intensities are analogous to "normalized log-ratios". However, in contrast to the latter, their variance is independent of the mean, and they are usually more sensitive and specific in detecting differential transcription.

r-waldo

Homepage:
Spack package:
Versions:
0.3.1, 0.2.3
Build Dependencies:
r, r-cli, r-diffobj, r-fansi, r-glue, r-rematch2, r-rlang, r-tibble
Run Dependencies:
r, r-cli, r-diffobj, r-fansi, r-glue, r-rematch2, r-rlang, r-tibble
Description:
Find Differences Between R Objects. Compare complex R objects and reveal the key differences. Designed particularly for use in testing packages where being able to quickly isolate key differences makes understanding test failures much easier.

r-watermelon

Homepage:
Spack package:
Versions:
2.0.0, 1.34.0, 1.30.0
Build Dependencies:
r, r-biobase, r-limma, r-matrixstats, r-methylumi, r-lumi, r-roc, r-illuminahumanmethylation450kanno-ilmn12-hg19, r-illuminaio
Run Dependencies:
r, r-biobase, r-limma, r-matrixstats, r-methylumi, r-lumi, r-roc, r-illuminahumanmethylation450kanno-ilmn12-hg19, r-illuminaio
Description:
Illumina 450 methylation array normalization and metrics. 15 flavours of betas and three performance metrics, with methods for objects produced by methylumi and minfi packages.

r-webshot

Homepage:
Spack package:
Versions:
0.5.2, 0.5.1
Build Dependencies:
r, r-magrittr, r-jsonlite, r-callr
Run Dependencies:
r, r-magrittr, r-jsonlite, r-callr, imagemagick
Description:
Take Screenshots of Web Pages. Takes screenshots of web pages, including Shiny applications and R Markdown documents.

r-wgcna

Homepage:
Spack package:
Versions:
1.70-3, 1.69, 1.68, 1.67, 1.64-1
Build Dependencies:
r, r-dynamictreecut, r-fastcluster, r-matrixstats, r-hmisc, r-impute, r-foreach, r-doparallel, r-preprocesscore, r-survival, r-go-db, r-annotationdbi, r-rcpp, r-robust
Run Dependencies:
r, r-dynamictreecut, r-fastcluster, r-matrixstats, r-hmisc, r-impute, r-foreach, r-doparallel, r-preprocesscore, r-survival, r-go-db, r-annotationdbi, r-rcpp, r-robust
Description:
Weighted Correlation Network Analysis. Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data as originally described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559>. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.

r-whisker

Homepage:
Spack package:
Versions:
0.4, 0.3-2
Build Dependencies:
r
Run Dependencies:
r
Description:
{{mustache}} for R, Logicless Templating. Implements 'Mustache' logicless templating.

r-withr

Homepage:
Spack package:
Versions:
2.4.3, 2.4.2, 2.4.0, 2.2.0, 2.1.2, 1.0.2, 1.0.1
Build Dependencies:
r
Run Dependencies:
r
Description:
Run Code 'With' Temporarily Modified Global State. A set of functions to run code 'with' safely and temporarily modified global state. Many of these functions were originally a part of the 'devtools' package, this provides a simple package with limited dependencies to provide access to these functions.

r-wk

Homepage:
Spack package:
Versions:
0.6.0, 0.4.1
Build Dependencies:
r, r-cpp11
Run Dependencies:
r, r-cpp11
Description:
Lightweight Well-Known Geometry Parsing. Provides a minimal R and C++ API for parsing well-known binary and well-known text representation of geometries to and from R-native formats. Well-known binary is compact and fast to parse; well-known text is human-readable and is useful for writing tests. These formats are only useful in R if the information they contain can be accessed in R, for which high-performance functions are provided here.

r-xde

Homepage:
Spack package:
Versions:
2.40.0, 2.36.0, 2.30.0, 2.28.0, 2.26.0, 2.24.0, 2.22.0
Build Dependencies:
r, r-biobase, r-biocgenerics, r-genefilter, r-gtools, r-mvtnorm, r-rcolorbrewer, r-genemeta, r-siggenes, r-mergemaid
Run Dependencies:
r, r-biobase, r-biocgenerics, r-genefilter, r-gtools, r-mvtnorm, r-rcolorbrewer, r-genemeta, r-siggenes, r-mergemaid
Description:
a Bayesian hierarchical model for cross-study analysis of differential gene expression. Multi-level model for cross-study detection of differential gene expression.

r-xfun

Homepage:
Spack package:
Versions:
0.29, 0.24, 0.20, 0.8
Build Dependencies:
r
Run Dependencies:
r
Description:
Supporting Functions for Packages Maintained by 'Yihui Xie'. Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.

r-xgboost

Homepage:
Spack package:
Versions:
1.5.0.2, 1.3.2.1, 0.90.0.2, 0.81.0.1, 0.6-4, 0.4-4
Build Dependencies:
r, r-matrix, r-data-table, r-jsonlite, gmake, r-stringr, r-stringi, r-magrittr
Run Dependencies:
r, r-matrix, r-data-table, r-jsonlite, r-stringr, r-stringi, r-magrittr
Description:
Extreme Gradient Boosting. Extreme Gradient Boosting, which is an efficient implementation of gradient boosting framework. This package is its R interface. The package includes efficient linear model solver and tree learning algorithms. The package can automatically do parallel computation on a single machine which could be more than 10 times faster than existing gradient boosting packages. It supports various objective functions, including regression, classification and ranking. The package is made to be extensible, so that users are also allowed to define their own objectives easily.

r-xlconnect

Homepage:
Spack package:
Versions:
1.0.5, 1.0.1, 0.2-15, 0.2-14, 0.2-12, 0.2-11
Build Dependencies:
r, r-rjava, java, r-xlconnectjars
Link Dependencies:
java
Run Dependencies:
r, r-rjava, r-xlconnectjars
Description:
Excel Connector for R. Provides comprehensive functionality to read, write and format Excel data.

r-xlconnectjars

Homepage:
Spack package:
Versions:
0.2-15, 0.2-14, 0.2-12, 0.2-9
Build Dependencies:
r, r-rjava, java
Link Dependencies:
java
Run Dependencies:
r, r-rjava
Description:
JAR Dependencies for the XLConnect Package. Provides external JAR dependencies for the XLConnect package.

r-xlsx

Homepage:
Spack package:
Versions:
0.6.5, 0.6.1
Build Dependencies:
r, r-rjava, r-xlsxjars, java
Link Dependencies:
java
Run Dependencies:
r, r-rjava, r-xlsxjars
Description:
Read, Write, Format Excel 2007 and Excel 97/2000/XP/2003 Files. Provide R functions to read/write/format Excel 2007 and Excel 97/2000/XP/2003 file formats.

r-xlsxjars

Homepage:
Spack package:
Versions:
0.6.1
Build Dependencies:
r, r-rjava
Run Dependencies:
r, r-rjava
Description:
Package required POI jars for the xlsx package. The xlsxjars package collects all the external jars required for the xlxs package. This release corresponds to POI 3.10.1.

r-xmapbridge

Homepage:
Spack package:
Versions:
1.52.0, 1.48.0, 1.42.0, 1.40.0, 1.38.0, 1.36.0, 1.34.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Export plotting files to the xmapBridge for visualisation in X:Map. xmapBridge can plot graphs in the X:Map genome browser. This package exports plotting files in a suitable format.

r-xml

Homepage:
Spack package:
Versions:
3.99-0.8, 3.99-0.5, 3.98-1.20, 3.98-1.19, 3.98-1.9, 3.98-1.5, 3.98-1.4
Build Dependencies:
r, libxml2
Link Dependencies:
libxml2
Run Dependencies:
r
Description:
Tools for Parsing and Generating XML Within R and S-Plus. Many approaches for both reading and creating XML (and HTML) documents (including DTDs), both local and accessible via HTTP or FTP. Also offers access to an 'XPath' "interpreter".

r-xml2

Homepage:
Spack package:
Versions:
1.3.3, 1.3.2, 1.2.2, 1.2.1, 1.1.1
Build Dependencies:
r, libxml2, r-rcpp, r-bh
Link Dependencies:
libxml2
Run Dependencies:
r, r-rcpp, r-bh
Description:
Package required POI jars for the xlsx package. Work with XML files using a simple, consistent interface. Built on top of the 'libxml2' C library.

r-xnomial

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Exact Goodness-of-Fit Test for Multinomial Data with Fixed Probabilities. Tests whether a set of counts fit a given expected ratio. For example, a genetic cross might be expected to produce four types in the relative frequencies of 9:3:3:1. To see whether a set of observed counts fits this expectation, one can examine all possible outcomes with xmulti() or a random sample of them with xmonte() and find the probability of an observation deviating from the expectation by at least as much as the observed. As a measure of deviation from the expected, one can use the log-likelihood ratio, the multinomial probability, or the classic chi-square statistic. A histogram of the test statistic can also be plotted and compared with the asymptotic curve.

r-xopen

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
r, r-processx
Run Dependencies:
r, r-processx
Description:
Open System Files, 'URLs', Anything. Cross platform solution to open files, directories or 'URLs' with their associated programs.

r-xtable

Homepage:
Spack package:
Versions:
1.8-4, 1.8-3, 1.8-2
Build Dependencies:
r
Run Dependencies:
r
Description:
Export Tables to LaTeX or HTML. Coerce data to LaTeX and HTML tables.

r-xts

Homepage:
Spack package:
Versions:
0.12.1, 0.11-2, 0.9-7
Build Dependencies:
r, r-zoo
Run Dependencies:
r, r-zoo
Description:
eXtensible Time Series. Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.

r-xvector

Homepage:
Spack package:
Versions:
0.34.0, 0.30.0, 0.24.0, 0.22.0, 0.20.0, 0.18.0, 0.16.0
Build Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-zlibbioc, zlib
Link Dependencies:
zlib
Run Dependencies:
r, r-biocgenerics, r-s4vectors, r-iranges, r-zlibbioc
Description:
Foundation of external vector representation and manipulation in Bioconductor. Provides memory efficient S4 classes for storing sequences "externally" (e.g. behind an R external pointer, or on disk).

r-yaimpute

Homepage:
Spack package:
Versions:
1.0-32
Build Dependencies:
r
Run Dependencies:
r
Description:
Nearest Neighbor Observation Imputation and Evaluation Tools. Performs nearest neighbor-based imputation using one or more alternative approaches to processing multivariate data. These include methods based on canonical correlation analysis, canonical correspondence analysis, and a multivariate adaptation of the random forest classification and regression techniques of Leo Breiman and Adele Cutler. Additional methods are also offered. The package includes functions for comparing the results from running alternative techniques, detecting imputation targets that are notably distant from reference observations, detecting and correcting for bias, bootstrapping and building ensemble imputations, and mapping results.

r-yaml

Homepage:
Spack package:
Versions:
2.3.5, 2.2.2, 2.2.1, 2.2.0, 2.1.19, 2.1.14, 2.1.13
Build Dependencies:
r
Run Dependencies:
r
Description:
Methods to Convert R Data to YAML and Back. Implements the 'libyaml' 'YAML' 1.1 parser and emitter (<https://pyyaml.org/wiki/LibYAML>) for R.

r-yapsa

Homepage:
Spack package:
Versions:
1.20.1, 1.16.0, 1.10.0, 1.8.0, 1.6.0, 1.4.0, 1.2.0
Build Dependencies:
r, r-genomicranges, r-ggplot2, r-limsolve, r-somaticsignatures, r-variantannotation, r-genomeinfodb, r-reshape2, r-gridextra, r-corrplot, r-dendextend, r-getoptlong, r-circlize, r-gtrellis, r-doparallel, r-pmcmrplus, r-ggbeeswarm, r-complexheatmap, r-keggrest, r-biostrings, r-bsgenome-hsapiens-ucsc-hg19, r-magrittr, r-pracma, r-dplyr, r-lsei, r-pmcmr
Run Dependencies:
r, r-genomicranges, r-ggplot2, r-limsolve, r-somaticsignatures, r-variantannotation, r-genomeinfodb, r-reshape2, r-gridextra, r-corrplot, r-dendextend, r-getoptlong, r-circlize, r-gtrellis, r-doparallel, r-pmcmrplus, r-ggbeeswarm, r-complexheatmap, r-keggrest, r-biostrings, r-bsgenome-hsapiens-ucsc-hg19, r-magrittr, r-pracma, r-dplyr, r-lsei, r-pmcmr
Description:
Yet Another Package for Signature Analysis. This package provides functions and routines useful in the analysis of somatic signatures (cf. L. Alexandrov et al., Nature 2013). In particular, functions to perform a signature analysis with known signatures (LCD = linear combination decomposition) and a signature analysis on stratified mutational catalogue (SMC = stratify mutational catalogue) are provided.

r-yaqcaffy

Homepage:
Spack package:
Versions:
1.50.0, 1.44.0, 1.42.0, 1.40.0, 1.38.0, 1.36.0
Build Dependencies:
r, r-simpleaffy
Run Dependencies:
r, r-simpleaffy
Description:
Affymetrix expression data quality control and reproducibility analysis. Quality control of Affymetrix GeneChip expression data and reproducibility analysis of human whole genome chips with the MAQC reference datasets.

r-yarn

Homepage:
Spack package:
Versions:
1.20.0, 1.16.0, 1.10.0, 1.8.1, 1.6.0, 1.4.0, 1.2.0
Build Dependencies:
r, r-biobase, r-biomart, r-downloader, r-edger, r-gplots, r-limma, r-matrixstats, r-preprocesscore, r-readr, r-rcolorbrewer, r-quantro
Run Dependencies:
r, r-biobase, r-biomart, r-downloader, r-edger, r-gplots, r-limma, r-matrixstats, r-preprocesscore, r-readr, r-rcolorbrewer, r-quantro
Description:
Robust Multi-Condition RNA-Seq Preprocessing and Normalization. Expedite large RNA-Seq analyses using a combination of previously developed tools. YARN is meant to make it easier for the user in performing basic mis-annotation quality control, filtering, and condition-aware normalization. YARN leverages many Bioconductor tools and statistical techniques to account for the large heterogeneity and sparsity found in very large RNA-seq experiments.

r-yulab-utils

Homepage:
Spack package:
Versions:
0.0.4
Build Dependencies:
r
Run Dependencies:
r
Description:
Supporting Functions for Packages Maintained by 'YuLab-SMU'. Miscellaneous functions commonly used by 'YuLab-SMU'.

r-zcompositions

Homepage:
Spack package:
Versions:
1.4.0, 1.3.4
Build Dependencies:
r, r-mass, r-nada, r-truncnorm
Run Dependencies:
r, r-mass, r-nada, r-truncnorm
Description:
Treatment of Zeros, Left-Censored and Missing Values in Compositional Data Sets. Principled methods for the imputation of zeros, left-censored and missing data in compositional data sets (Palarea-Albaladejo and Martin-Fernandez (2015) <doi:10.1016/j.chemolab.2015.02.019>).

r-zeallot

Homepage:
Spack package:
Versions:
0.1.0
Build Dependencies:
r
Run Dependencies:
r
Description:
Multiple, Unpacking, and Destructuring Assignment. Provides a %<-% operator to perform multiple, unpacking, and destructuring assignment in R. The operator unpacks the right-hand side of an assignment into multiple values and assigns these values to variables on the left-hand side of the assignment.

r-zip

Homepage:
Spack package:
Versions:
2.2.0, 2.1.1, 2.0.3
Build Dependencies:
r
Run Dependencies:
r
Description:
Cross-Platform 'zip' Compression. Cross-Platform 'zip' Compression Library. A replacement for the 'zip' function, that does not require any additional external tools on any platform.

r-zlibbioc

Homepage:
Spack package:
Versions:
1.40.0, 1.36.0, 1.30.0, 1.28.0, 1.26.0, 1.24.0, 1.22.0
Build Dependencies:
r
Run Dependencies:
r
Description:
An R packaged zlib-1.2.5. This package uses the source code of zlib-1.2.5 to create libraries for systems that do not have these available via other means (most Linux and Mac users should have system- level access to zlib, and no direct need for this package). See the vignette for instructions on use.

r-zoo

Homepage:
Spack package:
Versions:
1.8-9, 1.8-8, 1.8-6, 1.8-5, 1.7-14, 1.7-13
Build Dependencies:
r, r-lattice
Run Dependencies:
r, r-lattice
Description:
S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations). An S3 class with methods for totally ordered indexed observations. It is particularly aimed at irregular time series of numeric vectors/matrices and factors. zoo's key design goals are independence of a particular index/date/time class and consistency with ts and base R by providing methods to extend standard generics.

r3d

Homepage:
Spack package:
Versions:
master, 2021-03-16, 2019-04-24, 2018-12-19, 2018-01-07
Build Dependencies:
cmake
Description:
Fast, robust polyhedral intersections, analytic integration, and conservative voxelization.

rabbitmq

Homepage:
Spack package:
Versions:
3.6.15
Description:
RabbitMQ is lightweight and easy to deploy on premises and in the cloud. It supports multiple messaging protocols. RabbitMQ can be deployed in distributed and federated configurations to meet high-scale, high-availability requirements.

racket

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
libffi, patchutils, libtool
Link Dependencies:
libffi, patchutils
Run Dependencies:
libffi
Description:
The Racket programming language.

racon

Homepage:
Spack package:
Versions:
1.4.3, 1.4.2, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.1
Build Dependencies:
cmake, python, sse2neon
Link Dependencies:
sse2neon
Description:
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads.

raft

Homepage:
Spack package:
Versions:
develop, 1.2.3
Build Dependencies:
cmake, mpi, hdf5, fftw, cuda
Link Dependencies:
mpi, hdf5, fftw, cuda
Description:
RAFT: Reconstruct Algorithms for Tomography. Toolbox under development at Brazilian Synchrotron Light Source.

ragel

Homepage:
Spack package:
Versions:
6.10
Build Dependencies:
gnuconfig, colm
Description:
Ragel State Machine Compiler Ragel compiles executable finite state machines from regular languages. Ragel targets C, C++ and ASM. Ragel state machines can not only recognize byte sequences as regular expression machines do, but can also execute code at arbitrary points in the recognition of a regular language. Code embedding is done using inline operators that do not disrupt the regular language syntax.

raja

Homepage:
Spack package:
Versions:
develop, main, 2022.03.0, 0.14.0, 0.13.0, 0.12.1, 0.12.0, 0.11.0, 0.10.1, 0.10.0, 0.9.0, 0.8.0, 0.7.0, 0.6.0, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.1, 0.4.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blt, camp
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blt, camp
Description:
RAJA Parallel Framework.

ramulator

Homepage:
Spack package:
Versions:
sst
Description:
Ramulator is a fast and cycle-accurate DRAM simulator that supports a wide array of commercial, as well as academic, DRAM standards.

randfold

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
squid
Link Dependencies:
squid
Description:
Minimum free energy of folding randomization test software

random123

Homepage:
Spack package:
Versions:
1.14.0, 1.13.2, 1.10, 1.09
Description:
Random123 is a library of 'counter-based' random number generators (CBRNGs), in which the Nth random number can be obtained by applying a stateless mixing function to N instead of the conventional approach of using N iterations of a stateful transformation.

randrproto

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Resize and Rotate Extension (RandR). This extension defines a protocol for clients to dynamically change X screens, so as to resize, rotate and reflect the root window of a screen.

range-v3

Homepage:
Spack package:
Versions:
master, 0.11.0, 0.10.0, 0.5.0, 0.4.0, 0.3.7, 0.3.6, 0.3.5, 0.3.0, 0.2.6, 0.2.5, 0.2.4, 0.2.3, 0.2.2, 0.2.1, 0.2.0
Build Dependencies:
cmake, doxygen, boost
Description:
Range v3 forms the basis of a proposal to add range support to the standard library (N4128: Ranges for the Standard Library). It also will be the reference implementation for an upcoming Technical Specification. These are the first steps toward turning ranges into an international standard.

rankstr

Homepage:
Spack package:
Versions:
main, 0.1.0, 0.0.3, 0.0.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Assign one-to-one mapping of MPI ranks to strings

rapidjson

Homepage:
Spack package:
Versions:
1.2.0-2022-03-09, 1.2.0-2021-08-13, 1.1.0, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
cmake, doxygen
Link Dependencies:
doxygen
Description:
A fast JSON parser/generator for C++ with both SAX/DOM style API

raptor2

Homepage:
Spack package:
Versions:
2.0.15
Build Dependencies:
gnuconfig, libxml2
Link Dependencies:
libxml2
Description:
libraptor2 for parsing and serializing RDF syntaxes

rasdaemon

Homepage:
Spack package:
Versions:
0.6.6, 0.6.5, 0.6.4
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
Rasdaemon is a RAS (Reliability, Availability and Serviceability) logging tool. It records memory errors, using the EDAC tracing events. EDAC is a Linux kernel subsystem with handles detection of ECC errors from memory controllers for most chipsets on i386 and x86_64 architectures. EDAC drivers for other architectures like arm also exists.

rasqal

Homepage:
Spack package:
Versions:
0.9.33, 0.9.32, 0.9.31
Build Dependencies:
gnuconfig, raptor2
Link Dependencies:
raptor2
Description:
Rasqal is a free software / Open Source C library that handles Resource Description Framework (RDF) query language syntaxes, query construction and execution of queries returning results as bindings, boolean, RDF graphs/triples or syntaxes.

ratel

Homepage:
Spack package:
Versions:
develop, 0.1.2
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, libceed, petsc
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, libceed, petsc
Description:
Extensible, performance-portable solid mechanics with libCEED and PETSc

ravel

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
cmake, muster, otf, otf2, qt
Link Dependencies:
muster, otf, otf2, qt
Description:
Ravel is a parallel communication trace visualization tool that orders events according to logical time.

raxml

Homepage:
Spack package:
Versions:
8.2.12, 8.2.11
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
RAxML (Randomized Axelerated Maximum Likelihood) is a program for sequential and parallel Maximum Likelihood based inference of large phylogenetic trees.

raxml-ng

Homepage:
Spack package:
Versions:
1.0.2, 1.0.1
Build Dependencies:
cmake, bison, flex, gmp, mpi
Link Dependencies:
bison, flex, gmp, mpi
Description:
RAxML-NG is a phylogenetic tree inference tool which uses maximum- likelihood (ML) optimality criterion. Its search heuristic is based on iteratively performing a series of Subtree Pruning and Regrafting (SPR) moves, which allows to quickly navigate to the best-known ML tree. RAxML-NG is a successor of RAxML (Stamatakis 2014) and leverages the highly optimized likelihood computation implemented in libpll (Flouri et al. 2014).

ray

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Parallel genome assemblies for parallel DNA sequencing

rccl

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, rocm-cmake, hip, comgr, hsa-rocr-dev, numactl, rocm-smi-lib
Link Dependencies:
hip, comgr, hsa-rocr-dev, numactl, rocm-smi-lib
Description:
RCCL (pronounced "Rickle") is a stand-alone library of standard collective communication routines for GPUs, implementing all-reduce, all-gather, reduce, broadcast, and reduce-scatter.

rclone

Homepage:
Spack package:
Versions:
1.57.0, 1.56.2, 1.56.1, 1.56.0, 1.55.1, 1.55.0, 1.51.0, 1.50.2, 1.50.1, 1.50.0, 1.49.5, 1.49.4, 1.43
Build Dependencies:
go
Description:
Rclone is a command line program to sync files and directories to and from various cloud storage providers

rdc

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0
Build Dependencies:
cmake, grpc, protobuf, libcap, rocm-smi-lib, hsa-rocr-dev
Link Dependencies:
protobuf, libcap, rocm-smi-lib, hsa-rocr-dev
Description:
ROCm Data Center Tool

rdkit

Homepage:
Spack package:
Versions:
2021_09_5, 2021_09_4, 2021_09_3, 2021_09_2, 2021_09_1b1, 2021_09_1, 2021_03_5, 2021_03_4, 2021_03_3, 2021_03_2, 2021_03_1b1, 2021_03_1, 2020_09_5, 2020_09_4, 2020_09_3, 2020_09_2, 2020_09_1b1, 2020_09_1, 2020_03_6
Build Dependencies:
cmake, python, boost, py-numpy, sqlite
Link Dependencies:
python, boost, py-numpy, sqlite
Run Dependencies:
python
Description:
RDKit is a collection of cheminformatics and machine-learning software written in C++ and Python.

rdma-core

Homepage:
Spack package:
Versions:
39.1, 39.0, 34.0, 33.1, 32.0, 31.0, 30.0, 28.1, 27.1, 26.2, 25.4, 24.3, 23.4, 20, 17.1, 13
Build Dependencies:
cmake, pkgconfig, py-docutils, libnl
Link Dependencies:
libnl
Description:
RDMA core userspace libraries and daemons

rdp-classifier

Homepage:
Spack package:
Versions:
2.12
Build Dependencies:
java
Run Dependencies:
java
Description:
The RDP Classifier is a naive Bayesian classifier that can rapidly and accurately provides taxonomic assignments from domain to genus, with confidence estimates for each assignment.

rdptools

Homepage:
Spack package:
Versions:
2.0.2
Build Dependencies:
java, ant, python
Link Dependencies:
java, ant, python
Description:
Collection of commonly used RDP Tools for easy building.

re2

Homepage:
Spack package:
Versions:
2021-06-01, 2020-08-01, 2020-04-01
Build Dependencies:
cmake
Description:
RE2 is a fast, safe, thread-friendly alternative to backtracking regular expression engines like those used in PCRE, Perl, and Python.

re2c

Homepage:
Spack package:
Versions:
2.2, 2.1.1, 2.1, 2.0.3, 2.0.2, 2.0.1, 2.0, 1.3, 1.2.1
Build Dependencies:
gnuconfig
Description:
re2c: a free and open-source lexer generator for C and C++

readfq

Homepage:
Spack package:
Versions:
2013.04.10
Description:
Readfq is a collection of routines for parsing the FASTA/FASTQ format. It seamlessly parses both FASTA and multi-line FASTQ with a simple interface.

readline

Homepage:
Spack package:
Versions:
8.1, 8.0, 7.0, 6.3
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
The GNU Readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like history expansion on previous commands.

recola

Homepage:
Spack package:
Versions:
2.2.4, 2.2.3, 1.4.3
Build Dependencies:
cmake, collier, recola-sm, python
Link Dependencies:
collier, recola-sm, python
Description:
REcursive Computation of One-Loop Amplitudes: a fortran library for the perturbative computation of next-to-leading-order transition amplitudes in the Standard Model of particle physics.

recola-sm

Homepage:
Spack package:
Versions:
2.2.3
Build Dependencies:
cmake, collier
Link Dependencies:
collier
Description:
Standard Model files for the Recola generator.

recon

Homepage:
Spack package:
Versions:
1.05
Run Dependencies:
perl
Description:
RECON: a package for automated de novo identification of repeat families from genomic sequences.

recorder

Homepage:
Spack package:
Versions:
master, 2.2.1, 2.2.0, 2.1.6, 2.1.5, 2.1.4, pilgrim
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
A multi-level library for understanding I/O activity in HPC applications.

recordproto

Homepage:
Spack package:
Versions:
1.14.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Record Extension. This extension defines a protocol for the recording and playback of user actions in the X Window System.

redis

Homepage:
Spack package:
Versions:
6.2.5, 6.2.4, 6.2.3, 6.2.2, 6.2.1, 6.2.0, 6.0.15, 6.0.5, 5.0.3, 5.0.2, 5.0.1, 5.0.0, 4.0.13, 4.0.12, 4.0.11
Description:
Redis is an open source (BSD licensed), in-memory data structure store, used as a database, cache and message broker. It supports data structures such as strings, hashes, lists, sets, sorted sets with range queries, bitmaps, hyperloglogs, geospatial indexes with radius queries and streams. Redis has built-in replication, Lua scripting, LRU eviction, transactions and different levels of on-disk persistence, and provides high availability via Redis Sentinel and automatic partitioning with Redis Cluster

reditools

Homepage:
Spack package:
Versions:
1.3_2020-08-03, 1.3_2020-03-20
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-reindent
Run Dependencies:
python, blat, py-fisher, py-numpy, py-pandas, py-pysam, py-scipy, tabix, bcftools, bedtools2, bwa, bzip2, fastp, fastqc, git, gmap-gsnap, htslib, libdeflate, py-bx-python, py-rseqc, samtools, star, wget
Description:
REDItools: python scripts for RNA editing detection by RNA-Seq data. REDItools are simple python scripts conceived to facilitate the investigation of RNA editing at large-scale and devoted to research groups that would to explore such phenomenon in own data but don't have sufficient bioinformatics skills. They work on main operating systems (although unix/linux-based OS are preferred), can handle reads from whatever platform in the standard BAM format and implement a variety of filters.

redland

Homepage:
Spack package:
Versions:
1.0.17, 1.0.16, 1.0.15
Build Dependencies:
gnuconfig, raptor2, rasqal
Link Dependencies:
raptor2, rasqal
Description:
Redland RDF Library - librdf providing the RDF API and triple stores

redland-bindings

Homepage:
Spack package:
Versions:
1.0.17.1, 1.0.16.1, 1.0.14.1
Build Dependencies:
gnuconfig, swig, redland, krb5, libssh, python
Link Dependencies:
redland, krb5, libssh
Run Dependencies:
python
Description:
Redland Language Bindings for language APIs to Redland

redset

Homepage:
Spack package:
Versions:
main, 0.1.0, 0.0.5, 0.0.4, 0.0.3
Build Dependencies:
cmake, mpi, kvtree, rankstr
Link Dependencies:
mpi, kvtree, rankstr, zlib
Description:
Create MPI communicators for disparate redundancy sets

redundans

Homepage:
Spack package:
Versions:
0.14a, 0.13c
Build Dependencies:
python, py-pyscaf, py-fastaindex, py-numpy, perl, sspace-standard, bwa, last, gapcloser, parallel, snap-berkeley
Link Dependencies:
sspace-standard, bwa, last, gapcloser, parallel
Run Dependencies:
python, py-pyscaf, py-fastaindex, py-numpy, perl, snap-berkeley
Description:
Redundans pipeline assists an assembly of heterozygous genomes.

reframe

Homepage:
Spack package:
Versions:
master, 3.11.0, 3.10.1, 3.10.0, 3.9.3, 3.9.2, 3.9.1, 3.9.0, 3.8.3, 3.8.2, 3.8.1, 3.8.0, 3.7.3, 3.7.2, 3.7.1, 3.7.0, 3.6.3, 3.6.2, 3.6.1, 3.6.0, 3.5.3, 3.5.2, 3.5.1, 3.5.0, 3.4.2, 3.4.1, 3.4, 3.3, 3.2, 3.1, 3.0, 2.21, 2.20, 2.17.3, 2.17.2, 2.17.1
Build Dependencies:
py-setuptools, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
git, python, py-archspec, py-argcomplete, py-importlib-metadata, py-jsonschema, py-lxml, py-pyyaml, py-requests, py-semver, py-pygelf
Description:
ReFrame is a framework for writing regression tests for HPC systems. The goal of this framework is to abstract away the complexity of the interactions with the system, separating the logic of a regression test from the low-level details, which pertain to the system configuration and setup. This allows users to write easily portable regression tests, focusing only on the functionality.

regcm

Homepage:
Spack package:
Versions:
4.7.0
Build Dependencies:
gnuconfig, netcdf-c, netcdf-fortran, hdf5, mpi
Link Dependencies:
netcdf-c, netcdf-fortran, hdf5, mpi
Description:
RegCM, ICTP Regional Climate Model (https://ictp.it).

relax

Homepage:
Spack package:
Versions:
root6
Build Dependencies:
cmake, clhep, gsl, hepmc, root
Link Dependencies:
clhep, gsl, hepmc, root
Description:
A set of Reflex libraries for the most common used general data types in the LHC Computing Grid

relion

Homepage:
Spack package:
Versions:
master, 4.0-beta, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.8, 3.0.7
Build Dependencies:
cuda, cmake, mpi, fftw, fltk, libtiff, libpng, tbb, mkl
Link Dependencies:
cuda, mpi, fftw, fltk, libtiff, libpng, tbb, mkl
Run Dependencies:
ctffind, motioncor2
Description:
RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM).

remhos

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
mfem
Link Dependencies:
mfem
Description:
Remhos (REMap High-Order Solver) is a CEED miniapp that performs monotonic and conservative high-order discontinuous field interpolation (remap) using DG advection-based spatial discretization and explicit high-order time-stepping.

rempi

Homepage:
Spack package:
Versions:
1.1.0, 1.0.0
Build Dependencies:
gnuconfig, mpi, zlib, autoconf, automake, libtool
Link Dependencies:
mpi, zlib, libpciaccess
Description:
ReMPI is a record-and-replay tool for MPI applications.

rename

Homepage:
Spack package:
Versions:
1.600
Build Dependencies:
perl
Run Dependencies:
perl
Description:
Perl-powered file rename script with many helpful built-ins.

rendercheck

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
gnuconfig, libxrender, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxrender, libx11, xproto
Description:
rendercheck is a program to test a Render extension implementation against separate calculations of expected output.

renderproto

Homepage:
Spack package:
Versions:
0.11.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Rendering Extension. This extension defines the protcol for a digital image composition as the foundation of a new rendering model within the X Window System.

repeatmasker

Homepage:
Spack package:
Versions:
4.1.2-p1, 4.0.9, 4.0.7
Build Dependencies:
perl, perl-text-soundex, hmmer, ncbi-rmblastn, trf, python, py-h5py, phrap-crossmatch-swat
Link Dependencies:
hmmer, ncbi-rmblastn, trf
Run Dependencies:
perl, perl-text-soundex, python, py-h5py, phrap-crossmatch-swat
Description:
RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.

repeatmodeler

Homepage:
Spack package:
Versions:
1.0.11
Build Dependencies:
perl, perl-json, perl-uri, perl-libwww-perl
Run Dependencies:
perl, perl-json, perl-uri, perl-libwww-perl, repeatmasker, recon, repeatscout, trf, nseg, ncbi-rmblastn
Description:
RepeatModeler is a de-novo repeat family identification and modeling package.

repeatscout

Homepage:
Spack package:
Versions:
1.0.5
Run Dependencies:
perl, trf, nseg
Description:
RepeatScout - De Novo Repeat Finder, Price A.L., Jones N.C. and Pevzner P.A.

reprimand

Homepage:
Spack package:
Versions:
develop, 1.4, 1.3
Build Dependencies:
meson, ninja, boost, gsl, hdf5, python, py-matplotlib, py-pybind11
Link Dependencies:
boost, gsl, hdf5, python, py-matplotlib, py-pybind11
Run Dependencies:
python
Description:
RePrimAnd is a support library for numerical simulations of general relativistic magnetohydrodynamics. If provides methods for recovering primitive variables like pressure and velocity from the variables evolved in quasi-conservative formulations. Further, it provides a general framework for handling matter equations of state.

resourceproto

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Resource Extension. This extension defines a protocol that allows a client to query the X server about its usage of various resources.

restic

Homepage:
Spack package:
Versions:
0.12.1
Build Dependencies:
go
Description:
Fast, secure, efficient backup program.

revbayes

Homepage:
Spack package:
Versions:
develop, 1.1.1, 1.1.0, 1.0.13, 1.0.12, 1.0.11, 1.0.10
Build Dependencies:
cmake, boost, mpi
Link Dependencies:
boost, mpi
Description:
Bayesian phylogenetic inference using probabilistic graphical models and an interpreted language.

revocap-coupler

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Large Scale Assembly, Structural Correspondence, Multi Dynamics Simulator.In this program, a part of functions of ADVENTURE_Solid ver.1.1 module

revocap-refiner

Homepage:
Spack package:
Versions:
1.1.04
Description:
The University of Tokyo, CISS Project: Library for refining of model meshes

rgb

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, xorg-server, xproto
Link Dependencies:
xorg-server, xproto
Description:
X color name database. This package includes both the list mapping X color names to RGB values (rgb.txt) and, if configured to use a database for color lookup, the rgb program to convert the text file into the binary database format. The "others" subdirectory contains some alternate color databases.

rhash

Homepage:
Spack package:
Versions:
1.4.2, 1.3.5
Description:
RHash is a console utility for computing and verifying hash sums of files. It supports CRC32, MD4, MD5, SHA1, SHA256, SHA512, SHA3, Tiger, TTH, Torrent BTIH, AICH, ED2K, GOST R 34.11-94, RIPEMD-160, HAS-160, EDON-R 256/512, WHIRLPOOL and SNEFRU hash sums.

rinetd

Homepage:
Spack package:
Versions:
0.70, 0.63
Build Dependencies:
gnuconfig, autoconf, automake
Description:
This program is used to efficiently redirect connections from one IP address/port combination to another.

ripgrep

Homepage:
Spack package:
Versions:
11.0.2
Build Dependencies:
rust
Link Dependencies:
rust
Description:
ripgrep is a line-oriented search tool that recursively searches your current directory for a regex pattern. ripgrep is similar to other popular search tools like The Silver Searcher, ack and grep.

rivet

Homepage:
Spack package:
Versions:
3.1.6, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.2, 3.0.1, 3.0.0, 2.7.2b, 2.7.2, 2.7.1, 2.7.0, 2.6.2, 2.6.1, 2.6.0, 2.5.4, 2.5.3, 2.5.2, 2.5.1, 2.5.0, 2.4.3, 2.4.2, 2.4.1, 2.4.0, 2.3.0, 2.2.1, 2.2.0, 2.1.2, 2.1.1, 2.1.0, 2.0.0, 1.9.0, 1.8.3, 1.8.2, 1.8.1, 1.8.0, 1.7.0, 1.6.0, 1.5.1, 1.5.0, 1.4.0, 1.3.0, 1.2.1, 1.2.0, 1.1.3, 1.1.2, 1.1.1
Build Dependencies:
gnuconfig, yoda, hepmc, hepmc3, boost, fastjet, fjcontrib, gsl, python, py-cython, swig, yaml-cpp, autoconf, automake, libtool, m4
Link Dependencies:
yoda, hepmc, hepmc3, boost, fastjet, fjcontrib, gsl, yaml-cpp
Run Dependencies:
python
Description:
Rivet - the particle-physics MC analysis toolkit

base

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket
Run Dependencies:
racket
Description:
Stub package for packages which are currently part of core racket installation (but which may change in the future).

cext-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base, rkt-compiler-lib, rkt-dynext-lib, rkt-scheme-lib
Run Dependencies:
racket, rkt-base, rkt-compiler-lib, rkt-dynext-lib, rkt-scheme-lib
Description:
Racket library for running a C compiler/linker.

compiler-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base, rkt-scheme-lib, rkt-rackunit-lib, rkt-zo-lib
Run Dependencies:
racket, rkt-base, rkt-scheme-lib, rkt-rackunit-lib, rkt-zo-lib
Description:
Stub package for packages which are currently part of core Racket installation (but which may change in the future).

dynext-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base
Run Dependencies:
racket, rkt-base
Description:
Racket library for running a C compiler/linker.

rackunit-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base, rkt-testing-util-lib
Run Dependencies:
racket, rkt-base, rkt-testing-util-lib
Description:
RackUnit testing framework.

scheme-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base
Run Dependencies:
racket, rkt-base
Description:
Legacy Scheme Library.

testing-util-lib

Homepage:
Spack package:
Versions:
8.3
Build Dependencies:
racket, rkt-base
Run Dependencies:
racket, rkt-base
Description:
Utilities for interoperating between different testing libraries.

zo-lib

Homepage:
Spack package:
Versions:
1.3
Build Dependencies:
racket, rkt-base
Run Dependencies:
racket, rkt-base
Description:
Libraries for handling zo files.

rlwrap

Homepage:
Spack package:
Versions:
0.43
Build Dependencies:
gnuconfig, readline
Link Dependencies:
readline
Description:
rlwrap is a 'readline wrapper', a small utility that uses the GNU readline library to allow the editing of keyboard input for any command.

rmats

Homepage:
Spack package:
Versions:
4.0.2
Build Dependencies:
py-numpy, openblas
Link Dependencies:
openblas
Run Dependencies:
python, py-numpy
Description:
MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data.

rmgdft

Homepage:
Spack package:
Versions:
master, 4.2.2, 4.2.1
Build Dependencies:
cmake, boost, fftw-api, mpi, hdf5, blas
Link Dependencies:
boost, fftw-api, mpi, hdf5, blas
Description:
RMGDFT is a high performance real-space density functional code designed for large scale electronic structure calculations.

rmlab

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, pngwriter
Link Dependencies:
pngwriter
Description:
C++ File API for the reMarkable tablet

rna-seqc

Homepage:
Spack package:
Versions:
1.1.8, 1.1.7, 1.1.6, 1.1.5, 1.1.4
Run Dependencies:
java
Description:
RNA-SeQC is a java program which computes a series of quality control metrics for RNA-seq data.

rnaquast

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
python, py-matplotlib, py-joblib, py-gffutils, gmap-gsnap, blast-plus
Run Dependencies:
python, py-matplotlib, py-joblib, py-gffutils, gmap-gsnap, blast-plus
Description:
Quality assessment of de novo transcriptome assemblies from RNA-Seq data rnaQUAST is a tool for evaluating RNA-Seq assemblies using reference genome and gene database. In addition, rnaQUAST is also capable of estimating gene database coverage by raw reads and de novo quality assessment using third-party software.

rnaz

Homepage:
Spack package:
Versions:
2.1.1, 2.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool
Description:
RNAz - predicting structural noncoding RNAs.

rng-tools

Homepage:
Spack package:
Versions:
6.10, 6.9, 6.8
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, gettext, curl, jansson, libp11, librtlsdr, sysfsutils
Link Dependencies:
gettext, curl, jansson, libp11, librtlsdr, sysfsutils
Description:
This is a random number generator daemon. It monitors a set of entropy sources, and supplies entropy from them to the system kernel's /dev/random machinery.

rngstreams

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig
Description:
Multiple independent streams of pseudo-random numbers.

rnpletal

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuconfig, bison, flex
Description:
The acronym RNPL stands for Rapid Numerical Prototyping Language. It is a language for expressing time-dependent systems of partial differential equations and the information necessary for solving them using finite- difference techniques. It has advantages over traditional programming languages such as C and FORTRAN because it only requires the user to enter the essential structure of the program while it fills in the details.

rocalution

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, rocblas, rocprim, rocsparse, comgr, llvm-amdgpu, rocm-cmake, rocrand
Link Dependencies:
hip, rocblas, rocprim, rocsparse, comgr, rocrand
Description:
rocALUTION is a sparse linear algebra library with focus on exploring fine-grained parallelism on top of AMD's Radeon Open eCosystem Platform ROCm runtime and toolchains, targeting modern CPU and GPU platforms. Based on C++ and HIP, it provides a portable, generic and flexible design that allows seamless integration with other scientific software packages.

rocblas

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, llvm-amdgpu, rocminfo, rocm-cmake, rocm-smi, rocm-smi-lib, msgpack-c, python, py-virtualenv, perl-file-which, py-pyyaml, py-wheel, py-msgpack, py-pip
Link Dependencies:
hip, llvm-amdgpu, msgpack-c
Test Dependencies:
googletest, netlib-lapack
Description:
Radeon Open Compute BLAS library

rocfft

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, python, sqlite, hip, rocm-cmake
Link Dependencies:
sqlite, hip
Test Dependencies:
googletest, fftw, boost, llvm-amdgpu
Description:
Radeon Open Compute FFT library

rocketmq

Homepage:
Spack package:
Versions:
4.6.0, 4.5.2, 4.5.1, 4.5.0, 4.4.0, 4.3.2
Run Dependencies:
java
Description:
Apache RocketMQ is a distributed messaging and streaming platform with low latency, high performance and reliability, trillion-level capacity and flexible scalability.

rocksdb

Homepage:
Spack package:
Versions:
master, 6.20.3, 6.19.3, 6.11.4, 6.7.3, 6.5.3, 5.18.3, 5.17.2, 5.16.6, 5.15.10
Build Dependencies:
bzip2, gflags, lz4, snappy, zlib, zstd, tbb
Link Dependencies:
bzip2, gflags, lz4, snappy, zlib, zstd, tbb
Description:
RocksDB: A Persistent Key-Value Store for Flash and RAM Storage

rockstar

Homepage:
Spack package:
Versions:
develop, yt
Build Dependencies:
hdf5
Link Dependencies:
hdf5
Description:
The Rockstar Halo Finder

rocm-bandwidth-test

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsa-rocr-dev, hsakmt-roct
Link Dependencies:
hsa-rocr-dev, hsakmt-roct
Description:
Test to measure PciE bandwidth on ROCm platforms

rocm-clang-ocl

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, rocm-cmake, llvm-amdgpu, rocm-device-libs
Link Dependencies:
llvm-amdgpu, rocm-device-libs
Description:
OpenCL compilation with clang compiler

rocm-cmake

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake
Description:
rocm-cmake provides CMake modules for common build tasks in the ROCm software stack

rocm-dbgapi

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsa-rocr-dev, comgr
Link Dependencies:
comgr
Description:
The AMD Debugger API is a library that provides all the support necessary for a debugger and other tools to perform low level control of the execution and inspection of execution state of AMD's commercially available GPU architectures.

rocm-debug-agent

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsa-rocr-dev, hsakmt-roct, rocm-dbgapi, hip
Link Dependencies:
elfutils, hsa-rocr-dev, hsakmt-roct, rocm-dbgapi, hip
Description:
Radeon Open Compute (ROCm) debug agent

rocm-device-libs

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, rocm-cmake, llvm-amdgpu
Link Dependencies:
zlib, texinfo, llvm-amdgpu
Description:
set of AMD specific device-side language runtime libraries

rocm-gdb

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
gnuconfig, cmake, texinfo, bison, flex, libunwind, expat, python, gmp
Link Dependencies:
expat, python, zlib, babeltrace, gmp, rocm-dbgapi, comgr
Description:
This is ROCmgdb, the ROCm source-level debugger for Linux, based on GDB, the GNU source-level debugger.

rocm-opencl

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip-rocclr, comgr
Link Dependencies:
gl, numactl, hsa-rocr-dev
Description:
OpenCL: Open Computing Language on ROCclr

rocm-openmp-extras

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0
Build Dependencies:
cmake, py-setuptools, python, perl-data-dumper, awk, elfutils, libffi, hsakmt-roct, comgr, hsa-rocr-dev, llvm-amdgpu
Link Dependencies:
elfutils, libffi, hsakmt-roct, comgr, hsa-rocr-dev, llvm-amdgpu
Description:
OpenMP support for ROCm LLVM.

rocm-smi

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Run Dependencies:
python
Description:
This tool exposes functionality for clock and temperature management of your ROCm enabled system Note: After ROCm 3.9, this project moved to htt ps://github.com/RadeonOpenCompute/rocm_smi_lib/tree/master/python_smi_to ols The spack package is called: rocm-smi-lib

rocm-smi-lib

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, python
Run Dependencies:
python
Description:
It is a C library for Linux that provides a user space interface for applications to monitor and control GPU applications.

rocm-tensile

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, msgpack-c, boost, rocm-cmake, hip, comgr, llvm-amdgpu, rocminfo, rocm-smi, rocm-smi-lib
Link Dependencies:
msgpack-c, boost, hip, comgr, llvm-amdgpu
Description:
Radeon Open Compute Tensile library

rocm-validation-suite

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, yaml-cpp, googletest, doxygen, hip, hip-rocclr, rocminfo, rocblas, rocm-smi-lib
Link Dependencies:
zlib, yaml-cpp, googletest, hip, hip-rocclr, rocminfo, rocblas, rocm-smi-lib
Description:
The ROCm Validation Suite (RVS) is a system administrators and cluster manager's tool for detecting and troubleshooting common problems affecting AMD GPU(s) running in a high-performance computing environment, enabled using the ROCm software stack on a compatible platform.

rocminfo

Homepage:
Spack package:
Versions:
master, 5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsakmt-roct, hsa-rocr-dev
Link Dependencies:
hsakmt-roct, hsa-rocr-dev
Description:
Radeon Open Compute (ROCm) Runtime rocminfo tool

rocprim

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, comgr, hsa-rocr-dev, llvm-amdgpu, rocm-cmake
Link Dependencies:
numactl, hip, comgr, hsa-rocr-dev, llvm-amdgpu
Description:
Radeon Open Compute Parallel Primitives Library

rocprofiler-dev

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hsakmt-roct, hsa-rocr-dev, rocminfo, roctracer-dev-api
Link Dependencies:
hsakmt-roct, hsa-rocr-dev, rocminfo, roctracer-dev-api, numactl
Description:
ROCPROFILER library for AMD HSA runtime API extension support

rocrand

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, rocm-cmake
Link Dependencies:
hip
Test Dependencies:
googletest
Description:
The rocRAND project provides functions that generate pseudo-random and quasi-random numbers.

rocsolver

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, fmt, hip, rocblas, rocm-cmake
Link Dependencies:
hip, rocblas
Test Dependencies:
googletest, netlib-lapack
Description:
rocSOLVER is a work-in-progress implementation of a subset of LAPACK functionality on the ROCm platform.

rocsparse

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, hip, rocprim, rocm-cmake
Link Dependencies:
hip, rocprim
Description:
rocSPARSE exposes a common interface that provides Basic Linear Algebra Subroutines for sparse computation implemented on top of AMD's Radeon Open eCosystem Platform ROCm runtime and toolchains. rocSPARSE is created using the HIP programming language and optimized for AMD's latest discrete GPUs.

rocthrust

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, numactl, hip, rocprim, rocm-cmake
Link Dependencies:
numactl, hip, rocprim
Description:
Thrust is a parallel algorithm library. This library has been ported to HIP/ROCm platform, which uses the rocPRIM library. The HIP ported library works on HIP/ROCm platforms

roctracer-dev

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Build Dependencies:
cmake, python, py-cppheaderparser, hsakmt-roct, hsa-rocr-dev, rocminfo, hip, rocprofiler-dev
Link Dependencies:
hsakmt-roct, hsa-rocr-dev, rocminfo, hip, rocprofiler-dev
Description:
ROC-tracer library: Runtimes Generic Callback/Activity APIs. The goal of the implementation is to provide a generic independent from specific runtime profiler to trace API and asyncronous activity.

roctracer-dev-api

Homepage:
Spack package:
Versions:
5.1.0, 5.0.2, 5.0.0, 4.5.2, 4.5.0, 4.3.1, 4.3.0, 4.2.0, 4.1.0, 4.0.0, 3.10.0, 3.9.0, 3.8.0, 3.7.0, 3.5.0
Description:
ROC-tracer API. Installs the API header files of the roctracer-dev package, mainly to avoid circular dependencies in the ROCm ecosystem. For the ROC-tracer library, please check out roctracer-dev.

rodinia

Homepage:
Spack package:
Versions:
3.1
Build Dependencies:
cuda, freeglut, glew, gl, glu
Link Dependencies:
cuda, freeglut, glew, gl, glu
Description:
Rodinia: Accelerating Compute-Intensive Applications with Accelerators

roms

Homepage:
Spack package:
Versions:
3.8
Build Dependencies:
mpi, netcdf-fortran, netcdf-c, hdf5, zlib, curl, amdlibm
Link Dependencies:
mpi, netcdf-fortran, netcdf-c, hdf5, zlib, curl, amdlibm
Description:
ROMS is a free-surface, terrain-following, primitive equations ocean model widely used by the scientific community for a diverse range of applications

root

Homepage:
Spack package:
Versions:
master, 6.26.02, 6.26.00, 6.24.06, 6.24.02, 6.24.00, 6.22.08, 6.22.06, 6.22.02, 6.22.00, 6.20.08, 6.20.06, 6.20.04, 6.20.02, 6.20.00, 6.18.04, 6.18.02, 6.18.00, 6.16.00, 6.14.08, 6.14.06, 6.14.04, 6.14.02, 6.14.00, 6.12.06, 6.10.08, 6.08.06, 6.06.08, 6.06.06, 6.06.04, 6.06.02
Build Dependencies:
cmake, pkgconfig, blas, freetype, jpeg, libice, libpng, lz4, ncurses, nlohmann-json, pcre, xxhash, xz, zlib, zstd, libx11, libxext, libxft, libxpm, libsm, ftgl, glew, gl, glu, gl2ps, qt, python, py-numpy, davix, dcap, cfitsio, fcgi, fftw, graphviz, gsl, jemalloc, mysql-client, openssl, oracle-instant-client, postgresql, pythia6, pythia8, r, r-rcpp, r-rinside, readline, shadow, sqlite, tbb, unuran, vc, vdt, veccore, libxml2, xrootd
Link Dependencies:
blas, freetype, jpeg, libice, libpng, lz4, ncurses, nlohmann-json, pcre, xxhash, xz, zlib, zstd, libx11, libxext, libxft, libxpm, libsm, ftgl, glew, gl, glu, gl2ps, qt, davix, dcap, cfitsio, fcgi, fftw, graphviz, gsl, jemalloc, mysql-client, openssl, oracle-instant-client, postgresql, pythia6, pythia8, readline, shadow, sqlite, tbb, unuran, vc, vdt, veccore, libxml2, xrootd
Run Dependencies:
python, py-numpy, r, r-rcpp, r-rinside
Description:
ROOT is a data analysis framework.

rose

Homepage:
Spack package:
Versions:
develop, 0.9.13.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, flex, bison, boost, mvapich2, libgcrypt, java, z3, git
Link Dependencies:
boost, mvapich2, java, z3, git
Run Dependencies:
py-binwalk
Description:
A compiler infrastructure to build source-to-source program transformation and analysis tools. (Developed at Lawrence Livermore National Lab)

ross

Homepage:
Spack package:
Versions:
develop, master, 7.2.0, 7.1.1, 7.1.0, 7.0.1, 7.0.0, 6.0.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Rensselaer Optimistic Simulation System

routino

Homepage:
Spack package:
Versions:
3.2
Build Dependencies:
zlib, bzip2
Link Dependencies:
zlib, bzip2
Description:
Routino is an application for finding a route between two points using the dataset of topographical information collected by https://www.OpenStreetMap.org/.

rpcsvc-proto

Homepage:
Spack package:
Versions:
1.4
Build Dependencies:
gnuconfig, gettext
Link Dependencies:
gettext
Description:
rpcsvc protocol definitions from glibc.

rpm

Homepage:
Spack package:
Versions:
master, 4.16.1.2, 4.16.0
Build Dependencies:
gnuconfig, popt, lua, libcap, berkeley-db, gettext, iconv, file, libarchive, gnupg, libgcrypt, openssl, sqlite, python, zlib, bzip2, gzip, xz, lzma, zstd, doxygen, pkgconfig, autoconf, automake, libtool, m4
Link Dependencies:
popt, lua, libcap, berkeley-db, gettext, iconv, file, libarchive, gnupg, libgcrypt, openssl, sqlite, python, zlib, bzip2, gzip, xz, lzma, zstd
Run Dependencies:
unzip
Description:
The RPM package manager https://github.com/rpm-software- management/rpm/blob/master/INSTALL Note that debugedit is an additional tool that *should* compile with adding libdw and elfutils, but the library (as of 4.16.1.2) is being removed from rpm and will be put somewhere else.

rr

Homepage:
Spack package:
Versions:
4.5.0, 4.4.0, 4.3.0
Build Dependencies:
cmake, gdb, git, zlib, pkgconfig
Link Dependencies:
gdb, git, zlib
Test Dependencies:
py-pexpect
Description:
Application execution recorder, player and debugger

rrdtool

Homepage:
Spack package:
Versions:
1.7.2, 1.7.1, 1.7.0
Build Dependencies:
gnuconfig, libxml2, pango, lua, perl-extutils-makemaker
Link Dependencies:
libxml2, pango, lua, perl-extutils-makemaker
Description:
RA tool for data logging and analysis.

rsbench

Homepage:
Spack package:
Versions:
12, 2, 0
Description:
A mini-app to represent the multipole resonance representation lookup cross section algorithm.

rsem

Homepage:
Spack package:
Versions:
1.3.1, 1.3.0
Build Dependencies:
r, perl, python, bowtie, bowtie2, star
Link Dependencies:
bowtie, bowtie2, star
Run Dependencies:
r, perl, python
Description:
RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data.

rstart

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, xproto, pkgconfig, util-macros
Link Dependencies:
xproto
Description:
This package includes both the client and server sides implementing the protocol described in the "A Flexible Remote Execution Protocol Based on rsh" paper found in the specs/ subdirectory. This software has been deprecated in favor of the X11 forwarding provided in common ssh implementations.

rstudio

Homepage:
Spack package:
Versions:
1.4.1717
Build Dependencies:
cmake, r, pkgconfig, ant, boost, qt, patchelf, yaml-cpp, node-js, yarn, pandoc, icu4c, soci, java, r-base64enc, r-digest, r-evaluate, r-glue, r-highr, r-htmltools, r-jsonlite, r-knitr, r-magrittr, r-markdown, r-mime, r-rmarkdown, r-stringi, r-stringr, r-tinytex, r-xfun, r-yaml
Link Dependencies:
boost, qt, patchelf, yaml-cpp, node-js, yarn, pandoc, icu4c, soci, java, r-base64enc, r-digest, r-evaluate, r-glue, r-highr, r-htmltools, r-jsonlite, r-knitr, r-magrittr, r-markdown, r-mime, r-rmarkdown, r-stringi, r-stringr, r-tinytex, r-xfun, r-yaml
Run Dependencies:
r
Description:
RStudio is an integrated development environment (IDE) for R.

rsync

Homepage:
Spack package:
Versions:
3.2.4, 3.2.3, 3.2.2, 3.1.3, 3.1.2, 3.1.1
Build Dependencies:
gnuconfig, zlib, popt, openssl, xxhash, zstd, lz4
Link Dependencies:
zlib, popt, openssl, xxhash, zstd, lz4
Description:
An open source utility that provides fast incremental file transfer.

rsyslog

Homepage:
Spack package:
Versions:
8.2006.0, 8.2004.0, 8.2002.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libestr, libfastjson, zlib, uuid, libgcrypt, curl, byacc, flex
Link Dependencies:
libestr, libfastjson, zlib, uuid, libgcrypt, curl
Description:
The rocket-fast Syslog Server.

rt-tests

Homepage:
Spack package:
Versions:
1.2
Description:
Suite of real-time tests - cyclictest, hwlatdetect, pip_stress, pi_stress, pmqtest, ptsematest, rt-migrate-test, sendme, signaltest, sigwaittest, svsematest.

rtags

Homepage:
Spack package:
Versions:
2.20, 2.17
Build Dependencies:
cmake, llvm, zlib, openssl, lua, bash-completion, pkgconfig
Link Dependencies:
llvm, zlib, openssl, lua, bash-completion
Description:
RTags is a client/server application that indexes C/C++ code

rtax

Homepage:
Spack package:
Versions:
0.984
Build Dependencies:
usearch
Link Dependencies:
usearch
Description:
Rapid and accurate taxonomic classification of short paired-end sequence reads from the 16S ribosomal RNA gene

ruby

Homepage:
Spack package:
Versions:
3.1.0, 3.0.2, 3.0.1, 3.0.0, 2.7.2, 2.7.1, 2.6.2, 2.5.3, 2.2.0
Build Dependencies:
pkgconfig, libffi, libx11, tcl, tk, readline, zlib, openssl
Link Dependencies:
libffi, libx11, tcl, tk, readline, zlib, openssl
Description:
A dynamic, open source programming language with a focus on simplicity and productivity.

ruby-asciidoctor

Homepage:
Spack package:
Versions:
2.0.10
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
A fast, open source text processor and publishing toolchain for converting AsciiDoc content to HTML 5, DocBook 5, and other formats.

ruby-erubis

Homepage:
Spack package:
Versions:
master, 2.7.0
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Erubis is a fast, secure, and very extensible implementation of eRuby.

ruby-gnuplot

Homepage:
Spack package:
Versions:
2.6.2
Build Dependencies:
ruby, gnuplot
Link Dependencies:
gnuplot
Run Dependencies:
ruby
Description:
Utility library to aid in interacting with gnuplot from ruby

ruby-hpricot

Homepage:
Spack package:
Versions:
0.8.6
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
A swift, liberal HTML parser with a fantastic library. NOTE: ruby- hpricot is no longer maintained, consider ruby-nokogiri instead.

ruby-mustache

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Inspired by ctemplate and et, Mustache is a framework-agnostic way to render logic-free views.

ruby-narray

Homepage:
Spack package:
Versions:
master, 0.9.1.8
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Numo::NArray is an Numerical N-dimensional Array class for fast processing and easy manipulation of multi-dimensional numerical data, similar to numpy.ndaray.

ruby-rake

Homepage:
Spack package:
Versions:
13.0.1
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Rake is a Make-like program implemented in Ruby.

ruby-rdiscount

Homepage:
Spack package:
Versions:
2.2.0.2
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Fast Implementation of Gruber's Markdown in C.

ruby-ronn

Homepage:
Spack package:
Versions:
0.7.3, 0.7.0
Build Dependencies:
ruby, ruby-hpricot, ruby-rdiscount, ruby-mustache
Run Dependencies:
ruby, ruby-hpricot, ruby-rdiscount, ruby-mustache
Description:
Ronn builds manuals. It converts simple, human readable textfiles to roff for terminal display, and also to HTML for the web.

ruby-rubyinline

Homepage:
Spack package:
Versions:
3.12.5
Build Dependencies:
ruby, ruby-zentest
Run Dependencies:
ruby, ruby-zentest
Description:
Inline allows you to write foreign code within your ruby code.

ruby-svn2git

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
ruby, git, subversion
Link Dependencies:
git, subversion
Run Dependencies:
ruby
Description:
svn2git is a tiny utility for migrating projects from Subversion to Git while keeping the trunk, branches and tags where they should be. It uses git-svn to clone an svn repository and does some clean-up to make sure branches and tags are imported in a meaningful way, and that the code checked into master ends up being what's currently in your svn trunk rather than whichever svn branch your last commit was in.

ruby-terminal-table

Homepage:
Spack package:
Versions:
1.8.0
Build Dependencies:
ruby, ruby-unicode-display-width
Run Dependencies:
ruby, ruby-unicode-display-width
Description:
Simple, feature rich ascii table generation library

ruby-thor

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Thor is a toolkit for building powerful command-line interfaces.

ruby-tmuxinator

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
ruby, ruby-erubis, ruby-thor, ruby-xdg
Run Dependencies:
ruby, ruby-erubis, ruby-thor, ruby-xdg
Description:
Create and manage complex tmux sessions easily.

ruby-unicode-display-width

Homepage:
Spack package:
Versions:
1.7.0
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Determines the monospace display width of a string in Ruby.

ruby-xdg

Homepage:
Spack package:
Versions:
2.2.5
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
Provides a Ruby implementation of the XDG Base Directory Specification.

ruby-zentest

Homepage:
Spack package:
Versions:
4.12.0
Build Dependencies:
ruby
Run Dependencies:
ruby
Description:
ZenTest provides 4 different tools: zentest, unit_diff, autotest, and multiruby.

runc

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
go, go-md2man, pkgconfig, libseccomp
Link Dependencies:
libseccomp
Description:
CLI tool for spawning containers on Linux according to the OCI specification

rust

Homepage:
Spack package:
Versions:
master, 1.60.0, 1.58.1, 1.51.0, 1.48.0, 1.47.0, 1.46.0, 1.45.1, 1.44.1, 1.44.0, 1.43.1, 1.43.0, 1.42.0, 1.41.1, 1.41.0, 1.40.0, 1.39.0, 1.38.0, 1.37.0, 1.36.0, 1.35.0, 1.34.2, 1.34.1, 1.34.0, 1.33.0, 1.32.0, 1.31.1, 1.30.1, 1.30.0, 1.29.2, 1.29.1, 1.29.0, 1.28.0, 1.27.2, 1.27.1, 1.27.0, 1.26.2, 1.26.1, 1.26.0, 1.25.0, 1.24.1, 1.24.0, 1.23.0, nightly
Build Dependencies:
python, gmake, cmake, ninja, pkgconfig, openssl, libssh2, libgit2
Link Dependencies:
openssl, libssh2, libgit2
Description:
The Rust programming language toolchain This package can bootstrap any version of the Rust compiler since Rust 1.23. It does this by downloading the platform-appropriate binary distribution of the desired version of the rust compiler, and then building that compiler from source.

rust-bindgen

Homepage:
Spack package:
Versions:
0.20.5
Build Dependencies:
rust, llvm
Link Dependencies:
llvm
Run Dependencies:
rust
Description:
The rust programming language toolchain

sabre

Homepage:
Spack package:
Versions:
2013-09-27
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Sabre is a tool that will demultiplex barcoded reads into separate files. It will work on both single-end and paired-end data in fastq format. It simply compares the provided barcodes with each read and separates the read into its appropriate barcode file, after stripping the barcode from the read (and also stripping the quality values of the barcode bases). If a read does not have a recognized barcode, then it is put into the unknown file.

saga-gis

Homepage:
Spack package:
Versions:
develop, 7.4.0, 7.3.0, 7.1.1, 7.1.0, 7.0.0, 6.4.0, 6.3.0, 6.2.0, 6.1.0, 6.0.0, 5.0.1, 5.0.0, 4.1.0, 4.0.0, 3.0.0, 2.3.1, 2.3.0, 2.3-lts
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libharu, wxwidgets, postgresql, unixodbc, proj, opencv, jpeg, hdf5, gdal, libgeotiff, swig, python
Link Dependencies:
libsm, libharu, wxwidgets, postgresql, unixodbc, proj, opencv, jpeg, hdf5, gdal, libgeotiff
Run Dependencies:
python
Description:
SAGA is a GIS for Automated Geoscientific Analyses and has been designed for an easy and effective implementation of spatial algorithms. It offers a comprehensive, growing set of geoscientific methods and provides an easily approachable user interface with many visualisation options

sailfish

Homepage:
Spack package:
Versions:
0.10.1
Build Dependencies:
cmake, boost, tbb
Link Dependencies:
boost, tbb
Description:
Sailfish is a tool for transcript quantification from RNA-seq data.

salmon

Homepage:
Spack package:
Versions:
1.4.0, 0.14.1, 0.12.0, 0.9.1, 0.8.2
Build Dependencies:
cmake, tbb, boost, cereal, jemalloc, xz, zlib, bzip2, libdivsufsort, staden-io-lib, libgff, pkgconfig, curl
Link Dependencies:
tbb, boost, cereal, jemalloc, xz, zlib, bzip2, libdivsufsort, staden-io-lib, libgff, pkgconfig, curl
Description:
Salmon is a tool for quantifying the expression of transcripts using RNA-seq data.

salmon-tddft

Homepage:
Spack package:
Versions:
2.0.0, 1.2.1
Build Dependencies:
cmake
Link Dependencies:
mpi, scalapack, eigenexa, lapack, libxc
Description:
SALMON is an open-source computer program for ab-initio quantum- mechanical calculations of electron dynamics at the nanoscale that takes place in various situations of light-matter interactions. It is based on time-dependent density functional theory, solving time-dependent Kohn- Sham equation in real time and real space with norm-conserving pseudopotentials.

salome-configuration

Homepage:
Spack package:
Versions:
9.7.0, 9.6.0, 9.5.0, 9.4.0, 9.3.0
Description:
salome-configuration is a part of SALOME platform and define general build tools for the platform.

salome-med

Homepage:
Spack package:
Versions:
4.1.0, 4.0.0, 3.3.1, 3.2.0
Build Dependencies:
cmake, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
salome-med is the MED file format that is the SALOME platform standard file for meshes and fields and salome-med is based on HDF5 library.

salome-medcoupling

Homepage:
Spack package:
Versions:
9.7.0, 9.6.0, 9.5.0, 9.4.0, 9.3.0
Build Dependencies:
cmake, libxml2, libtirpc, cppunit, python, py-scipy, py-numpy, boost, swig, metis, scotch, mpi, salome-configuration, salome-med
Link Dependencies:
libxml2, libtirpc, cppunit, python, boost, metis, scotch, mpi, salome-configuration, salome-med
Run Dependencies:
py-scipy, py-numpy
Description:
salome-medcoupling is a part of SALOME platform to manipulate meshes and fields in memory, and use salome-med format for files.

sambamba

Homepage:
Spack package:
Versions:
0.6.6
Build Dependencies:
ldc, python
Link Dependencies:
ldc
Description:
Sambamba: process your BAM data faster (bioinformatics)

samblaster

Homepage:
Spack package:
Versions:
0.1.24, 0.1.23
Description:
A tool to mark duplicates and extract discordant and split reads from sam files.

samrai

Homepage:
Spack package:
Versions:
3.12.0, 3.11.5, 3.11.4, 3.11.2, 3.11.1, 3.10.0, 3.9.1, 3.8.0, 3.7.3, 3.7.2, 3.6.3-beta, 3.5.2-beta, 3.5.0-beta, 3.4.1-beta, 3.3.3-beta, 3.3.2-beta, 2.4.4
Build Dependencies:
gnuconfig, mpi, zlib, hdf5, m4, boost, silo
Link Dependencies:
mpi, zlib, hdf5, silo
Description:
SAMRAI (Structured Adaptive Mesh Refinement Application Infrastructure) is an object-oriented C++ software library enables exploration of numerical, algorithmic, parallel computing, and software issues associated with applying structured adaptive mesh refinement (SAMR) technology in large-scale parallel application development.

samtools

Homepage:
Spack package:
Versions:
1.14, 1.13, 1.12, 1.10, 1.9, 1.8, 1.7, 1.6, 1.5, 1.4, 1.3.1, 1.2, 0.1.8
Build Dependencies:
zlib, ncurses, htslib
Link Dependencies:
zlib, ncurses, htslib
Run Dependencies:
perl, python
Description:
SAM Tools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format

sandbox

Homepage:
Spack package:
Versions:
2.12
Build Dependencies:
gnuconfig, gawk
Description:
sandbox'd LD_PRELOAD hack by Gentoo Linux

sarus

Homepage:
Spack package:
Versions:
develop, master, 1.4.1, 1.4.0, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.0, 1.1.0, 1.0.1, 1.0.0
Build Dependencies:
cmake, expat, squashfs, boost, cpprestsdk, libarchive, rapidjson, runc, tini, autoconf
Link Dependencies:
boost, cpprestsdk, libarchive, runc, tini
Run Dependencies:
squashfs
Test Dependencies:
python
Description:
Sarus is an OCI-compliant container engine for HPC systems.

satsuma2

Homepage:
Spack package:
Versions:
2021-03-04, 2016-11-22
Build Dependencies:
cmake
Description:
Satsuma2 is an optimsed version of Satsuma, a tool to reliably align large and complex DNA sequences providing maximum sensitivity (to find all there is to find), specificity (to only find real homology) and speed (to accomodate the billions of base pairs in vertebrate genomes).

savanna

Homepage:
Spack package:
Versions:
develop, 0.5
Build Dependencies:
mpi, stc, adios, mpix-launch-swift, tau
Link Dependencies:
mpi, stc, adios, mpix-launch-swift, tau
Description:
CODARcode Savanna runtime framework for high performance, workflow management using Swift/T and ADIOS.

saws

Homepage:
Spack package:
Versions:
develop, 0.1.1, 0.1.0
Build Dependencies:
gnuconfig, python
Description:
The Scientific Application Web server (SAWs) turns any C or C++ scientific or engineering application code into a webserver, allowing one to examine (and even modify) the state of the simulation with any browser from anywhere.

sblim-sfcc

Homepage:
Spack package:
Versions:
2_2_8, 2_2_7, 2_2_6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, curl
Link Dependencies:
curl
Description:
Small Footprint CIM Client Library

sbml

Homepage:
Spack package:
Versions:
5.18.0, 5.17.0, 5.16.0, 5.15.0, 5.13.0, 5.12.0, 5.11.4, 5.11.0, 5.10.2, 5.10.0
Build Dependencies:
cmake, python, perl, ruby, r, octave, matlab, java, mono, swig, zlib, bzip2, libxml2
Link Dependencies:
python, perl, ruby, r, octave, matlab, java, mono, zlib, bzip2, libxml2
Description:
Library for the Systems Biology Markup Language

sbp

Homepage:
Spack package:
Versions:
3.4.10
Build Dependencies:
cmake
Description:
Library providing an API for Piksi GNSS devices.

sbt

Homepage:
Spack package:
Versions:
1.1.6, 1.1.5, 1.1.4, 0.13.17
Build Dependencies:
java
Link Dependencies:
java
Description:
Scala Build Tool

scala

Homepage:
Spack package:
Versions:
2.13.1, 2.12.10, 2.12.6, 2.12.5, 2.12.1, 2.11.11, 2.10.6
Build Dependencies:
java
Link Dependencies:
java
Description:
Scala is a general-purpose programming language providing support for functional programming and a strong static type system. Designed to be concise, many of Scala's design decisions were designed to build from criticisms of Java.

scalasca

Homepage:
Spack package:
Versions:
2.6, 2.5, 2.4, 2.3.1, 2.2.2, 2.1
Build Dependencies:
gnuconfig, mpi, cubew, otf2, cube
Link Dependencies:
mpi, cubew, otf2, cube
Run Dependencies:
scorep
Description:
Scalasca is a software tool that supports the performance optimization of parallel programs by measuring and analyzing their runtime behavior. The analysis identifies potential performance bottlenecks - in particular those concerning communication and synchronization - and offers guidance in exploring their causes.

scale

Homepage:
Spack package:
Versions:
5.4.4, 5.3.6, 5.2.6
Build Dependencies:
openmpi, netcdf-c, netcdf-fortran, parallel-netcdf
Link Dependencies:
openmpi, netcdf-c, netcdf-fortran, parallel-netcdf
Run Dependencies:
openmpi
Description:
SCALE (Scalable Computing for Advanced Library and Environment) is a basic library for weather and climate model of the earth and planets aimed to be widely used in various models. The SCALE library is developed with co-design by researchers of computational science and computer science.

scallop

Homepage:
Spack package:
Versions:
0.10.5, 0.10.3
Build Dependencies:
gnuconfig, clp, boost, htslib
Link Dependencies:
clp, boost, htslib
Description:
Scallop is a reference-based transcriptome assembler for RNA-seq

scalpel

Homepage:
Spack package:
Versions:
0.5.4, 0.5.3
Build Dependencies:
perl
Link Dependencies:
perl
Description:
Scalpel is a software package for detecting INDELs (INsertions and DELetions) mutations in a reference genome which has been sequenced with next-generation sequencing technology.

scan-for-matches

Homepage:
Spack package:
Versions:
2010-7-16
Description:
scan_for_matches is a utility written in C for locating patterns in DNA or protein FASTA files.

scantailor

Homepage:
Spack package:
Versions:
0.2.7
Build Dependencies:
cmake, qt, libjpeg, zlib, libpng, libtiff, boost, libxrender
Link Dependencies:
qt, libjpeg, zlib, libpng, libtiff, boost, libxrender
Description:
Scan Tailor is an interactive post-processing tool for scanned pages. It performs operations such as page splitting, deskewing, adding/removing borders, and others. You give it raw scans, and you get pages ready to be printed or assembled into a PDF or DJVU file. Scanning, optical character recognition, and assembling multi-page documents are out of scope of this project.

scipoptsuite

Homepage:
Spack package:
Versions:
7.0.1
Build Dependencies:
cmake, gmp, zlib, readline, ncurses
Link Dependencies:
gmp, zlib, readline, ncurses
Description:
The SCIP Optimization Suite is a toolbox for generating and solving mixed integer nonlinear programs, in particular mixed integer linear programs, and constraint integer programs Note: A manual download is required for SCIP. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

scitokens-cpp

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
cmake, sqlite, curl, uuid
Link Dependencies:
sqlite, curl
Description:
A C++ implementation of the SciTokens library with a C library interface. SciTokens provide a token format for distributed authorization.

scons

Homepage:
Spack package:
Versions:
4.3.0, 4.2.0, 4.1.0.post1, 4.0.1, 4.0.0, 3.1.2, 3.1.1, 3.1.0, 3.0.5, 3.0.4, 3.0.1, 2.5.1, 2.5.0
Build Dependencies:
python, py-pip, py-wheel, py-setuptools
Link Dependencies:
python
Run Dependencies:
python, py-setuptools
Description:
SCons is a software construction tool

scorec-core

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, mpi, zoltan
Link Dependencies:
mpi, zoltan
Description:
The SCOREC Core is a set of C/C++ libraries for unstructured mesh simulations on supercomputers.

scorep

Homepage:
Spack package:
Versions:
7.0, 6.0, 5.0, 4.1, 4.0, 3.1, 3.0, 2.0.2, 1.4.2, 1.3
Build Dependencies:
gnuconfig, otf2, cubew, cubelib, opari2, cube, mpi, papi, pdt, llvm, libunwind
Link Dependencies:
otf2, cubew, cubelib, opari2, cube, mpi, papi, pdt, llvm, libunwind
Description:
The Score-P measurement infrastructure is a highly scalable and easy-to- use tool suite for profiling, event tracing, and online analysis of HPC applications.

scorpio

Homepage:
Spack package:
Versions:
develop, 2021-12-10
Build Dependencies:
cmake, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
SCORPIO Scalable Parallel I/O module for Environmental Management Applications This library provides software that read/write data sets from/to parallel file systems in an efficient and scalable manner

scotch

Homepage:
Spack package:
Versions:
7.0.1, 6.1.3, 6.1.2, 6.1.1, 6.1.0, 6.0.10, 6.0.9, 6.0.8, 6.0.6, 6.0.5a, 6.0.4, 6.0.3, 6.0.0, 5.1.10b
Build Dependencies:
cmake, flex, bison, mpi, zlib
Link Dependencies:
mpi, zlib
Description:
Scotch is a software package for graph and mesh/hypergraph partitioning, graph clustering, and sparse matrix ordering.

scr

Homepage:
Spack package:
Versions:
develop, 3.0rc2, 3.0rc1, 2.0.0, 1.2.2, 1.2.1, 1.2.0, legacy
Build Dependencies:
cmake, mpi, zlib, axl, dtcmp, er, kvtree, rankstr, redset, shuffile, spath, libyogrt, pdsh
Link Dependencies:
mpi, zlib, axl, dtcmp, er, kvtree, rankstr, redset, shuffile, spath, libyogrt
Run Dependencies:
pdsh
Description:
SCR caches checkpoint data in storage on the compute nodes of a Linux cluster to provide a fast, scalable checkpoint/restart capability for MPI codes

screen

Homepage:
Spack package:
Versions:
4.9.0, 4.8.0, 4.6.2, 4.3.1, 4.3.0, 4.2.1, 4.2.0, 4.0.3, 4.0.2, 3.9.15, 3.9.11, 3.9.10, 3.9.9, 3.9.8, 3.9.4, 3.7.6, 3.7.4, 3.7.2, 3.7.1
Build Dependencies:
gnuconfig, ncurses, autoconf, automake, libtool
Link Dependencies:
ncurses
Description:
Screen is a full-screen window manager that multiplexes a physical terminal between several processes, typically interactive shells.

scripts

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, pkgconfig, util-macros
Link Dependencies:
libx11
Description:
Various X related scripts.

scrnsaverproto

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
MIT Screen Saver Extension. This extension defines a protocol to control screensaver features and also to query screensaver info on specific windows.

scrot

Homepage:
Spack package:
Versions:
1.6, 1.5
Build Dependencies:
gnuconfig, giblib, imlib2, libtool, libxcomposite, libxfixes
Link Dependencies:
giblib, imlib2, libtool, libxcomposite, libxfixes
Description:
scrot (SCReenshOT) is a simple command line screen capture utility that uses imlib2 to grab and save images. Multiple image formats are supported through imlib2's dynamic saver modules.

scs

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
blas, lapack, cuda
Link Dependencies:
blas, lapack, cuda
Description:
A C package that solves convex cone problems via operator splitting

sctk

Homepage:
Spack package:
Versions:
2.4.10, 2.4.9, 2.4.8, 2.4.0
Description:
The NIST Scoring Toolkit (SCTK) is a collection of software tools designed to score benchmark test evaluations of Automatic Speech Recognition (ASR) Systems. The toolkit is currently used by NIST, benchmark test participants, and reserchers worldwide to as a common scoring engine.

sdl2

Homepage:
Spack package:
Versions:
2.0.14, 2.0.5
Build Dependencies:
cmake
Link Dependencies:
libxext
Description:
Simple DirectMedia Layer is a cross-platform development library designed to provide low level access to audio, keyboard, mouse, joystick, and graphics hardware via OpenGL and Direct3D.

sdl2-image

Homepage:
Spack package:
Versions:
2.0.1
Build Dependencies:
gnuconfig, sdl2
Link Dependencies:
sdl2
Description:
SDL is designed to provide the bare bones of creating a graphical program.

sdsl-lite

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
cmake, tar
Description:
SDSL - Succinct Data Structure Library The Succinct Data Structure Library (SDSL) is a powerful and flexible C++11 library implementing succinct data structures.

seacas

Homepage:
Spack package:
Versions:
master, 2022-03-04, 2022-01-27, 2021-09-30, 2021-05-12, 2021-04-05, 2021-01-20, 2021-01-06, 2020-08-13, 2020-05-12, 2020-03-16, 2020-01-16, 2019-12-18, 2019-10-14, 2019-08-20, 2019-07-26
Build Dependencies:
cmake, netcdf-c, hdf5, cgns, fmt, adios2, matio, metis, parmetis, libx11, faodel, mpi
Link Dependencies:
netcdf-c, hdf5, cgns, fmt, adios2, matio, metis, parmetis, libx11, faodel, mpi
Description:
The SEACAS Project contains the Exodus and IOSS libraries and a collection of applications which create, query, modify, or translate exodus databases. Default is to build the exodus and IOSS libraries and the io_shell, io_info, io_modify, struc_to_unstruc apps.

seal

Homepage:
Spack package:
Versions:
3.7.1, 3.7.0, 3.6.6, 3.6.5, 3.6.4, 3.6.3, 3.6.2, 3.6.1, 3.6.0, 3.5.9
Build Dependencies:
cmake
Description:
Microsoft SEAL is an easy-to-use open-source (MIT licensed) homomorphic encryption library developed by the Cryptography and Privacy Research Group at Microsoft. Microsoft SEAL is written in modern standard C++ and is easy to compile and run in many different environments. For more information about the Microsoft SEAL project, see sealcrypto.org.

sed

Homepage:
Spack package:
Versions:
4.8, 4.2.2
Build Dependencies:
gnuconfig
Description:
GNU implementation of the famous stream editor.

sensei

Homepage:
Spack package:
Versions:
develop, 3.2.2, 3.2.1, 3.2.0, 3.1.0, 3.0.0, 2.1.1, 2.1.0, 2.0.0, 1.1.0, 1.0.0
Build Dependencies:
cmake, paraview, visit, vtk, adios2, ascent, hdf5, python, py-numpy, py-mpi4py, swig, pugixml
Link Dependencies:
paraview, visit, vtk, adios2, ascent, hdf5, pugixml
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
SENSEI is a platform for scalable in-situ analysis and visualization. Its design motto is 'Write once, run everywhere', this means that once the application is instrumented with SENSEI it can use existing and future analysis backends. Existing backends include: Paraview/Catalyst, Visit/Libsim, ADIOS, Python scripts, and so on.

sentencepiece

Homepage:
Spack package:
Versions:
0.1.91, 0.1.85
Build Dependencies:
cmake, gperftools
Link Dependencies:
gperftools
Description:
Unsupervised text tokenizer for Neural Network-based text generation. This is the C++ package.

sentieon-genomics

Homepage:
Spack package:
Versions:
202112.02, 201808.07, 201808.01
Description:
Sentieon provides complete solutions for secondary DNA analysis. Our software improves upon BWA, GATK, Mutect, and Mutect2 based pipelines. The Sentieon tools are deployable on any CPU-based computing system. Use of this software is subject to the EULA at: https://www.sentieon.com/EULA/eula-aws.html Please set the path to the sentieon license server with: export SENTIEON_LICENSE=[FQDN]:[PORT]

seqan

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
cmake, python, py-nose, py-sphinx, boost, zlib, bzip2
Link Dependencies:
boost, zlib, bzip2
Description:
SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. Our library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance

seqkit

Homepage:
Spack package:
Versions:
0.10.1
Description:
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang.

seqprep

Homepage:
Spack package:
Versions:
1.3.2
Link Dependencies:
zlib
Description:
SeqPrep is a program to merge paired end Illumina reads that are overlapping into a single longer read.

seqtk

Homepage:
Spack package:
Versions:
1.3, 1.2, 1.1
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Toolkit for processing sequences in FASTA/Q formats.

serf

Homepage:
Spack package:
Versions:
1.3.9, 1.3.8
Build Dependencies:
scons, apr, apr-util, openssl, python, uuid, zlib
Link Dependencies:
apr, apr-util, openssl, uuid, zlib
Description:
Apache Serf - a high performance C-based HTTP client library built upon the Apache Portable Runtime (APR) library

serialbox

Homepage:
Spack package:
Versions:
2.6.1, 2.6.0, 2.5.4, 2.5.3
Build Dependencies:
cmake, boost, netcdf-c, python, py-numpy
Link Dependencies:
boost, netcdf-c
Run Dependencies:
python, py-numpy
Description:
Serialbox is a serialization library and tools for C/C++, Python3 and Fortran. Serialbox is used in several projects for building validation frameworks against reference runs.

sessreg

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, xproto, pkgconfig, util-macros
Link Dependencies:
xproto
Description:
Sessreg is a simple program for managing utmp/wtmp entries for X sessions. It was originally written for use with xdm, but may also be used with other display managers such as gdm or kdm.

setserial

Homepage:
Spack package:
Versions:
2.17
Build Dependencies:
gnuconfig
Description:
A utility for configuring serial ports.

setxkbmap

Homepage:
Spack package:
Versions:
1.3.1
Build Dependencies:
gnuconfig, libxkbfile, libx11, pkgconfig, util-macros
Link Dependencies:
libxkbfile, libx11
Description:
setxkbmap is an X11 client to change the keymaps in the X server for a specified keyboard to use the layout determined by the options listed on the command line.

sfcgal

Homepage:
Spack package:
Versions:
1.3.8, 1.3.7
Build Dependencies:
cmake, cgal, boost, mpfr, gmp
Link Dependencies:
cgal, boost, mpfr, gmp
Description:
SFCGAL is a C++ wrapper library around CGAL with the aim of supporting ISO 19107:2013 and OGC Simple Features Access 1.2 for 3D operations. SFCGAL provides standard compliant geometry types and operations, that can be accessed from its C or C++ APIs.

sfcio

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
cmake
Description:
The SFCIO library provides an API to read the NCEP Spectral model surface files. This is part of the NCEPLIBS project.

sga

Homepage:
Spack package:
Versions:
0.10.15, 0.10.14, 0.10.13, 0.10.12, 0.10.11, 0.10.10, 0.10.9, 0.10.8, 0.10.3
Build Dependencies:
gnuconfig, zlib, sparsehash, jemalloc, bamtools, autoconf, automake, libtool
Link Dependencies:
zlib, sparsehash, jemalloc, bamtools
Description:
SGA is a de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.

sgpp

Homepage:
Spack package:
Versions:
master, 3.4.0, 3.3.0, 3.2.0, 3.1.0, 3.0.0
Build Dependencies:
scons, python, py-pip, py-wheel, py-setuptools, swig, py-numpy, py-scipy, opencl, mpi
Link Dependencies:
zlib
Run Dependencies:
python, py-numpy, py-scipy, opencl, mpi
Test Dependencies:
boost
Description:
SGpp is a library and framework for sparse grids in different flavors. SGpp supports both hierarchical spatially-adaptive sparse grids and the dimensionally-adaptive sparse grid combination technique.

shadow

Homepage:
Spack package:
Versions:
4.8.1, 4.7, 4.6
Build Dependencies:
gnuconfig
Description:
Tools to help unprivileged users create uid and gid mappings in user namespaces.

shapeit

Homepage:
Spack package:
Versions:
2.837
Description:
SHAPEIT is a fast and accurate method for estimation of haplotypes (aka phasing) from genotype or sequencing data.

shapeit4

Homepage:
Spack package:
Versions:
4.1.3
Build Dependencies:
htslib, boost, bzip2, xz
Link Dependencies:
htslib, boost, bzip2, xz
Description:
SHAPEIT4 is a fast and accurate method for estimation of haplotypes (aka phasing) for SNP array and high coverage sequencing data.

shapelib

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
cmake
Description:
The Shapefile C Library provides the ability to write simple C programs for reading, writing and updating (to a limited extent) ESRI Shapefiles, and the associated attribute file (.dbf).

shared-mime-info

Homepage:
Spack package:
Versions:
1.9, 1.8
Build Dependencies:
gnuconfig, glib, libxml2, intltool, gettext, pkgconfig
Link Dependencies:
glib, libxml2
Description:
Database of common MIME types.

shark

Homepage:
Spack package:
Versions:
4.0.1, 4.0.0, 3.1.4
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
Shark is a fast, modular, general open-source C++ machine learning library.

shc

Homepage:
Spack package:
Versions:
4.0.3, 4.0.2, 4.0.1, 4.0.0, 3.9.8
Build Dependencies:
gnuconfig
Description:
A generic shell script compiler. Shc takes a script, which is specified on the command line and produces C source code. The generated source code is then compiled and linked to produce a stripped binary executable.

shengbte

Homepage:
Spack package:
Versions:
1.1.1-8a63749
Build Dependencies:
mpi, spglib, mkl
Link Dependencies:
mpi, spglib, mkl
Description:
ShengBTE is a software package for solving the Boltzmann Transport Equation for phonons.

sherpa

Homepage:
Spack package:
Versions:
2.2.12, 2.2.11, 2.2.10, 2.2.9, 2.2.8, 2.0.0, 1.3.1, 1.3.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.3, 1.1.2, 1.1.1, 1.1.0, 1.0.9, 1.0.8, 1.0.7, 1.0.6
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, texinfo, sqlite, mpi, python, swig, hepmc, hepmc3, rivet, fastjet, openloops, recola, root, lhapdf, gzip, pythia6, blackhat, hztool
Link Dependencies:
sqlite, mpi, python, hepmc, hepmc3, rivet, fastjet, openloops, recola, root, lhapdf, gzip, pythia6, blackhat, hztool
Description:
Sherpa is a Monte Carlo event generator for the Simulation of High- Energy Reactions of PArticles in lepton-lepton, lepton-photon, photon- photon, lepton-hadron and hadron-hadron collisions.

shiny-server

Homepage:
Spack package:
Versions:
1.5.3.838
Build Dependencies:
cmake, python, git, r, openssl
Link Dependencies:
python, git, r, openssl
Description:
Shiny server lets you put shiny web applications and interactive documents online. Take your shiny apps and share them with your organization or the world.

shiro

Homepage:
Spack package:
Versions:
1.6.0, 1.5.3
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Shiro is a powerful and easy-to-use Java security framework that performs authentication, authorization, cryptography, and session management. With Shiro's easy-to-understand API, you can quickly and easily secure any application - from the smallest mobile applications to the largest web and enterprise applications.

shocklibs

Homepage:
Spack package:
Versions:
0.9.24
Description:
The lib for shock: An object store for scientific data.

shoremap

Homepage:
Spack package:
Versions:
3.6
Build Dependencies:
dislin
Link Dependencies:
dislin
Description:
SHOREmap is a computational tool implementing a method that enables simple and straightforward mapping-by-sequencing analysis. Whole genome resequencing of pools of recombinant mutant genomes allows directly linking phenotypic traits to causal mutations. Such an analysis, called mapping-by-sequencing, combines classical genetic mapping and next generation sequencing by relying on selection-induced patterns within genome-wide allele frequency in pooled genomes.

shortbred

Homepage:
Spack package:
Versions:
0.9.4
Build Dependencies:
blast-plus, cdhit, muscle, python, py-biopython, usearch
Link Dependencies:
blast-plus, cdhit, muscle, python, py-biopython, usearch
Description:
ShortBRED is a system for profiling protein families of interest at very high specificity in shotgun meta'omic sequencing data.

shortstack

Homepage:
Spack package:
Versions:
3.8.3
Build Dependencies:
perl, samtools, viennarna, bowtie
Link Dependencies:
samtools, viennarna, bowtie
Run Dependencies:
perl
Description:
ShortStack is a tool developed to process and analyze smallRNA-seq data with respect to a reference genome, and output a comprehensive and informative annotation of all discovered small RNA genes.

showfont

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libfs, pkgconfig, util-macros
Link Dependencies:
libfs
Description:
showfont displays data about a font from an X font server. The information shown includes font information, font properties, character metrics, and character bitmaps.

shtools

Homepage:
Spack package:
Versions:
4.9.1, 4.8, 4.5
Build Dependencies:
blas, fftw, lapack
Link Dependencies:
blas, fftw, lapack
Test Dependencies:
py-flake8
Description:
SHTOOLS - Spherical Harmonic Tools

shuffile

Homepage:
Spack package:
Versions:
main, 0.1.0, 0.0.4, 0.0.3
Build Dependencies:
cmake, mpi, kvtree
Link Dependencies:
mpi, kvtree, zlib
Description:
Shuffle files between MPI ranks

sickle

Homepage:
Spack package:
Versions:
1.33
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Sickle is a tool that uses sliding windows along with quality and length thresholds to determine when quality is sufficiently low to trim the 3'-end of reads and also determines when the quality is sufficiently high enough to trim the 5'-end of reads.

sicm

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, jemalloc, numactl
Link Dependencies:
jemalloc, numactl
Description:
SICM: Simplified Interface to Complex Memory.

siesta

Homepage:
Spack package:
Versions:
4.0.2, 4.0.1, 3.2-pl-5
Build Dependencies:
mpi, blas, lapack, scalapack, netcdf-c, netcdf-fortran
Link Dependencies:
mpi, blas, lapack, scalapack, netcdf-c, netcdf-fortran
Description:
SIESTA performs electronic structure calculations and ab initio molecular dynamics simulations of molecules and solids.

sigcpp

Homepage:
Spack package:
Versions:
3.2.0, 3.0.7
Build Dependencies:
cmake
Description:
libsigc++ : The Typesafe Callback Framework for C++

sigio

Homepage:
Spack package:
Versions:
2.3.2
Build Dependencies:
cmake
Description:
The SIGIO library provides an Application Program Interface for performing I/O on the sigma restart file of the NOAA global spectral model. This is part of the NCEPLIBS project.

signalp

Homepage:
Spack package:
Versions:
4.1f
Build Dependencies:
perl, gnuplot
Link Dependencies:
gnuplot
Run Dependencies:
perl
Description:
SignalP predicts the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms: Gram-positive bacteria, Gram-negative bacteria, and eukaryotes. Note: A manual download is required for SignalP. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

signify

Homepage:
Spack package:
Versions:
23
Build Dependencies:
libbsd
Link Dependencies:
libbsd
Description:
OpenBSD tool to signs and verify signatures on files.

silo

Homepage:
Spack package:
Versions:
4.11-bsd, 4.11, 4.10.2-bsd, 4.10.2, 4.9, 4.8
Build Dependencies:
gnuconfig, m4, autoconf, autoconf-archive, automake, libtool, mpi, hdf5, qt, libx11, libxmu, readline, zlib
Link Dependencies:
mpi, hdf5, qt, libx11, libxmu, readline, zlib
Description:
Silo is a library for reading and writing a wide variety of scientific data to binary, disk files.

simde

Homepage:
Spack package:
Versions:
0.6.0
Build Dependencies:
meson, ninja
Description:
The SIMDe header-only library provides fast, portable implementations of SIMD intrinsics on hardware which doesn't natively support them, such as calling SSE functions on ARM. There is no performance penalty if the hardware supports the native implementation (e.g., SSE/AVX runs at full speed on x86, NEON on ARM, etc.).

simgrid

Homepage:
Spack package:
Versions:
develop, 3.29, 3.28, 3.27, 3.26, 3.25, 3.24, 3.23, 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14.159, 3.13, 3.12, 3.11
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
SimGrid is a framework for developing simulators of distributed applications targetting distributed platforms, which can in turn be used to prototype, evaluate and compare relevant platform configurations, system designs, and algorithmic approaches.

MeshSimAdvanced

Homepage:
Spack package:
Versions:
16.0-220312, 16.0-210623, 14.0-191122, 12.0-191027
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Simmetrix' Simulation Modeling Suite is a set of component software toolkits that allow developers to easily implement geometry-based simulation applications. Each component of the Simulation Modeling Suite is designed to address specific capabilities: | MeshSim - automatic mesh generation | FieldSim - simulation data management | GeomSim - direct, untranslated access to geometry from a wide variety of sources

simplemoc

Homepage:
Spack package:
Versions:
4
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
The purpose of this mini-app is to demonstrate the performance characterterics and viability of the Method of Characteristics (MOC) for 3D neutron transport calculations in the context of full scale light water reactor simulation.

simsipm

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
cmake, python, py-pybind11
Link Dependencies:
py-pybind11
Run Dependencies:
python
Description:
SimSiPM is a simple and easy to use C++ library providing a set of object-oriented tools with all the functionality needed to describe and simulate Silicon PhotonMultipliers (SiPM) sensors.

simul

Homepage:
Spack package:
Versions:
1.16, 1.15, 1.14, 1.13
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
simul is an MPI coordinated test of parallel filesystem system calls and library functions.

simulationio

Homepage:
Spack package:
Versions:
master, 9.0.2, 9.0.1
Build Dependencies:
cmake, asdf-cxx, hdf5, julia, py-h5py, py-numpy, python, rnpletal, silo, swig
Link Dependencies:
asdf-cxx, hdf5, rnpletal, silo
Run Dependencies:
julia, py-h5py, py-numpy, python
Description:
SimulationIO: Efficient and convenient I/O for large PDE simulations

sina

Homepage:
Spack package:
Versions:
1.11.0, 1.10.0
Build Dependencies:
cmake, adiak, doxygen, conduit
Link Dependencies:
adiak, conduit
Description:
Sina C++ Library

singularity

Homepage:
Spack package:
Versions:
master, 3.8.5, 3.8.3, 3.8.0, 3.7.4, 3.7.3, 3.7.2, 3.7.1, 3.7.0, 3.6.4, 3.6.3, 3.6.2, 3.6.1, 3.5.3, 3.5.2, 3.4.1, 3.4.0, 3.3.0, 3.2.1, 3.1.1
Build Dependencies:
pkgconfig, go, uuid, libgpg-error, libseccomp, git, cryptsetup
Link Dependencies:
go, uuid, libgpg-error, libseccomp, git
Run Dependencies:
squashfs, shadow, cryptsetup
Description:
Singularity is a container technology focused on building portable encapsulated environments to support "Mobility of Compute" For older versions of Singularity (pre 3.0) you should use singularity-legacy, which has a different install base (Autotools). Needs post-install chmod/chown steps to enable full functionality. See package definition or `spack-build-out.txt` build log for details, e.g. tail -15 $(spack location -i singularity)/.spack/spack-build-out.txt

singularity-legacy

Homepage:
Spack package:
Versions:
2.6.1, 2.6.0, 2.6-release, 2.5.2
Build Dependencies:
gnuconfig, libarchive, m4, autoconf, automake, libtool
Link Dependencies:
libarchive
Description:
Singularity is a container platform focused on supporting 'Mobility of Compute'. The software changed the installation method from AutoTools to GoLang, so we have two separate package names to support that. The legacy package is pre-version 3.0.0

singularityce

Homepage:
Spack package:
Versions:
master, 3.9.1, 3.8.0
Build Dependencies:
pkgconfig, go, uuid, libgpg-error, libseccomp, git, cryptsetup
Link Dependencies:
go, uuid, libgpg-error, libseccomp, git
Run Dependencies:
squashfs, shadow, cryptsetup
Description:
Singularity is a container technology focused on building portable encapsulated environments to support "Mobility of Compute" For older versions of Singularity (pre 3.0) you should use singularity-legacy, which has a different install base (Autotools). Needs post-install chmod/chown steps to enable full functionality. See package definition or `spack-build-out.txt` build log for details, e.g. tail -15 $(spack location -i singularity)/.spack/spack-build-out.txt

sio

Homepage:
Spack package:
Versions:
master, 0.1, 0.0.4, 0.0.3, 0.0.2
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib
Description:
SIO is a persistency solution for reading and writing binary data in SIO structures called record and block. SIO has originally been implemented as persistency layer for LCIO.

sionlib

Homepage:
Spack package:
Versions:
1.7.6
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
Scalable I/O library for parallel access to task-local files

sirius

Homepage:
Spack package:
Versions:
develop, master, 7.3.0, 7.2.7, 7.2.6, 7.2.5, 7.2.4, 7.2.3, 7.2.1, 7.2.0, 7.0.2, 7.0.1, 7.0.0, 6.5.7, 6.5.6, 6.5.5, 6.5.4, 6.5.3, 6.5.2, 6.5.1, 6.5.0, 6.4.4, 6.4.3, 6.4.2, 6.4.1, 6.4.0, 6.3.4, 6.3.3, 6.3.2, 6.1.5
Build Dependencies:
cuda, cmake, mpi, gsl, lapack, fftw-api, libxc, spglib, hdf5, pkgconfig, python, py-numpy, py-scipy, py-h5py, py-mpi4py, py-pyyaml, py-voluptuous, py-pybind11, magma, boost, spfft, spla, nlcglib, libvdwxc, scalapack, hip, rocblas, openblas, amdblis, blis, intel-mkl, elpa, eigen, costa
Link Dependencies:
cuda, mpi, gsl, lapack, fftw-api, libxc, spglib, hdf5, magma, boost, spfft, spla, nlcglib, libvdwxc, scalapack, hip, rocblas, openblas, amdblis, blis, intel-mkl, elpa, eigen, costa
Run Dependencies:
python, py-numpy, py-scipy, py-h5py, py-mpi4py, py-pyyaml, py-voluptuous, py-pybind11
Description:
Domain specific library for electronic structure calculations

skilion-onedrive

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
dmd, curl, sqlite
Link Dependencies:
dmd, curl, sqlite
Description:
A complete tool to interact with OneDrive on Linux, developed by Skilion, following the UNIX philosophy.

skopeo

Homepage:
Spack package:
Versions:
0.1.40, 0.1.39, 0.1.38, 0.1.37, 0.1.36
Build Dependencies:
go, go-md2man, gpgme, libassuan, libgpg-error, lvm2
Link Dependencies:
go, gpgme, libassuan, libgpg-error, lvm2
Description:
skopeo is a command line utility that performs various operations on container images and image repositories.

sl

Homepage:
Spack package:
Versions:
5.02
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
SL: Cure your bad habit of mistyping

slang

Homepage:
Spack package:
Versions:
2.3.2, 2.3.1
Build Dependencies:
gnuconfig
Description:
An interpreted language and programing library.

slate

Homepage:
Spack package:
Versions:
master, 2021.05.02, 2021.05.01, 2020.10.00
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, blas, blaspp, lapackpp, scalapack, hipify-clang
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, blas, blaspp, lapackpp, scalapack, hipify-clang
Run Dependencies:
cmake
Description:
The Software for Linear Algebra Targeting Exascale (SLATE) project is to provide fundamental dense linear algebra capabilities to the US Department of Energy and to the high-performance computing (HPC) community at large. To this end, SLATE will provide basic dense matrix operations (e.g., matrix multiplication, rank-k update, triangular solve), linear systems solvers, least square solvers, singular value and eigenvalue solvers.

sleef

Homepage:
Spack package:
Versions:
master, 3.5.1_2020-12-22, 3.5.1, 3.4.0_2019-07-30, 3.4.0_2019-05-13, 3.3.1_2018-12-09, 3.2_2018-05-09, 3.2
Build Dependencies:
cmake, ninja
Description:
SIMD Library for Evaluating Elementary Functions, vectorized libm and DFT.

slepc

Homepage:
Spack package:
Versions:
main, 3.17.1, 3.17.0, 3.16.3, 3.16.2, 3.16.1, 3.16.0, 3.15.2, 3.15.1, 3.15.0, 3.14.2, 3.14.1, 3.14.0, 3.13.4, 3.13.3, 3.13.2, 3.13.1, 3.13.0, 3.12.2, 3.12.1, 3.12.0, 3.11.2, 3.11.1, 3.11.0, 3.10.2, 3.10.1, 3.10.0, 3.9.2, 3.9.1, 3.9.0, 3.8.2, 3.8.0, 3.7.4, 3.7.3, 3.7.1, 3.6.3, 3.6.2
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, python, petsc, arpack-ng
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, petsc, arpack-ng
Description:
Scalable Library for Eigenvalue Problem Computations.

slf4j

Homepage:
Spack package:
Versions:
1.7.30, 1.7.29, 1.7.28, 1.7.27, 1.7.26
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
The Simple Logging Facade for Java (SLF4J) serves as a simple facade or abstraction for various logging frameworks (e.g. java.util.logging, logback,log4j) allowing the end user to plug in the desired logging framework at deployment time.

slider

Homepage:
Spack package:
Versions:
0.92.0, 0.91.0, 0.90.2
Build Dependencies:
java, maven
Run Dependencies:
java, python
Description:
Slider is a framework for deployment and management of these long- running data access applications in Hadoop.

slirp4netns

Homepage:
Spack package:
Versions:
1.1.12
Build Dependencies:
gnuconfig, autoconf, automake, libtool, pkgconfig, glib, libcap, libseccomp, libslirp
Link Dependencies:
glib, libcap, libseccomp, libslirp
Description:
User-mode networking for unprivileged network namespaces

sloccount

Homepage:
Spack package:
Versions:
2.26
Build Dependencies:
coreutils
Run Dependencies:
coreutils
Description:
SLOCCount is a set of tools for counting physical Source Lines of Code (SLOC) in a large number of languages of a potentially large set of programs.

slurm

Homepage:
Spack package:
Versions:
21-08-8-2, 21-08-8-1, 21-08-1-1, 21-08-0-1, 20-11-9-1, 20-11-8-1, 20-11-7-1, 20-11-5-1, 20-11-4-1, 20-11-0-1, 20-02-7-1, 20-02-4-1, 19-05-6-1, 19-05-5-1, 18-08-9-1, 18-08-0-1, 17-11-9-2, 17-02-6-1
Build Dependencies:
gnuconfig, curl, glib, json-c, lz4, munge, openssl, pkgconfig, readline, zlib, gtkplus, hdf5, hwloc, mariadb, pmix, http-parser, libyaml, libjwt
Link Dependencies:
curl, glib, json-c, lz4, munge, openssl, readline, zlib, gtkplus, hdf5, hwloc, mariadb, pmix, http-parser, libyaml, libjwt
Description:
Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters. Slurm requires no kernel modifications for its operation and is relatively self-contained. As a cluster workload manager, Slurm has three key functions. First, it allocates exclusive and/or non-exclusive access to resources (compute nodes) to users for some duration of time so they can perform work. Second, it provides a framework for starting, executing, and monitoring work (normally a parallel job) on the set of allocated nodes. Finally, it arbitrates contention for resources by managing a queue of pending work.

slurm-drmaa

Homepage:
Spack package:
Versions:
main, 1.1.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, bison, slurm, gperf, ragel
Link Dependencies:
slurm, gperf, ragel
Description:
DRMAA for Slurm is an implementation of Open Grid Forum DRMAA 1.0 (Distributed Resource Management Application API) specification for submission and control of jobs to SLURM. Using DRMAA, grid applications builders, portal developers and ISVs can use the same high-level API to link their software with different cluster/resource management systems.

smalt

Homepage:
Spack package:
Versions:
0.7.6
Build Dependencies:
gnuconfig
Description:
SMALT aligns DNA sequencing reads with a reference genome.

smartdenovo

Homepage:
Spack package:
Versions:
master
Build Dependencies:
sse2neon
Link Dependencies:
sse2neon
Description:
SMARTdenovo is a de novo assembler for PacBio and Oxford Nanopore (ONT) data.

smartmontools

Homepage:
Spack package:
Versions:
6.6
Build Dependencies:
gnuconfig
Description:
S.M.A.R.T. utility toolset.

smof

Homepage:
Spack package:
Versions:
2.13.1
Run Dependencies:
python
Description:
Explore and analyze biological sequence data

smproxy

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libsm, libice, libxt, libxmu, pkgconfig, util-macros
Link Dependencies:
libsm, libice, libxt, libxmu
Description:
smproxy allows X applications that do not support X11R6 session management to participate in an X11R6 session.

snap

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
SNAP serves as a proxy application to model the performance of a modern discrete ordinates neutral particle transport application. SNAP may be considered an update to Sweep3D, intended for hybrid computing architectures. It is modeled off the Los Alamos National Laboratory code PARTISN.

snap-berkeley

Homepage:
Spack package:
Versions:
1.0beta.18, 0.15
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
SNAP is a fast and accurate aligner for short DNA reads. It is optimized for modern read lengths of 100 bases or higher, and takes advantage of these reads to align data quickly through a hash-based indexing scheme.

snap-korf

Homepage:
Spack package:
Versions:
2021-11-04, 2013-11-29
Build Dependencies:
perl
Run Dependencies:
perl
Description:
SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes.

snappy

Homepage:
Spack package:
Versions:
1.1.8, 1.1.7
Build Dependencies:
cmake
Test Dependencies:
googletest
Description:
A fast compressor/decompressor: https://code.google.com/p/snappy

snbone

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
metis
Link Dependencies:
metis
Description:
This application targets the primary computational solve burden of a SN, continuous finite element based transport equation solver.

sniffles

Homepage:
Spack package:
Versions:
1.0.7, 1.0.5
Build Dependencies:
cmake
Link Dependencies:
zlib, bamtools
Description:
Structural variation caller using third generation sequencing.

snpeff

Homepage:
Spack package:
Versions:
2017-11-24
Build Dependencies:
java
Run Dependencies:
java
Description:
SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of genetic variants (such as amino acid changes).

snphylo

Homepage:
Spack package:
Versions:
2016-02-04
Build Dependencies:
python, r, r-phangorn, r-gdsfmt, r-snprelate, r-getopt, muscle, phylip
Link Dependencies:
muscle, phylip
Run Dependencies:
python, r, r-phangorn, r-gdsfmt, r-snprelate, r-getopt
Description:
A pipeline to generate a phylogenetic tree from huge SNP data

snptest

Homepage:
Spack package:
Versions:
2.5.2
Description:
SNPTEST is a program for the analysis of single SNP association in genome-wide studies.

soapdenovo-trans

Homepage:
Spack package:
Versions:
1.0.5, 1.0.4
Link Dependencies:
zlib, samtools
Description:
SOAPdenovo-Trans is a de novo transcriptome assembler basing on the SOAPdenovo framework, adapt to alternative splicing and different expression level among transcripts.

soapdenovo2

Homepage:
Spack package:
Versions:
242, 240
Description:
SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads. It creates new opportunities for building reference sequences and carrying out accurate analyses of unexplored genomes in a cost effective way.

soci

Homepage:
Spack package:
Versions:
4.0.2, 4.0.0, 3.2.3, 3.2.2
Build Dependencies:
cmake, boost, sqlite, postgresql
Link Dependencies:
boost, sqlite, postgresql
Description:
Official repository of the SOCI - The C++ Database Access Library

sofa-c

Homepage:
Spack package:
Versions:
20180130
Description:
Standards of Fundamental Astronomy (SOFA) library for ANSI C.

sollve

Homepage:
Spack package:
Versions:
develop, 1.0a2
Build Dependencies:
cmake, python, perl-data-dumper, argobots, ncurses, swig, libedit, py-six, binutils
Link Dependencies:
argobots, ncurses, swig, libedit, binutils
Run Dependencies:
python, py-six
Description:
The SOLLVE Project aims at scaling OpenMP by leveraging LLVM for exascale performance and portability of applications. This package provides a collection of Clang/LLVM compilers and an OpenMP runtime library.

sollya

Homepage:
Spack package:
Versions:
7.0
Build Dependencies:
gnuconfig, gmp, mpfi, mpfr, libxml2, fplll
Link Dependencies:
gmp, mpfi, mpfr, libxml2, fplll
Description:
Sollya is both a tool environment and a library for safe floating-point code development. It is particularily targeted to the automatized implementation of mathematical floating-point libraries (libm). Amongst other features, it offers a certified infinity (supremum) norm and a fast Remez algorithm.

solr

Homepage:
Spack package:
Versions:
8.6.0, 8.5.2, 8.5.1, 8.5.0, 8.4.1, 7.7.3
Run Dependencies:
java
Description:
Solr is highly reliable, scalable and fault tolerant, providing distributed indexing, replication and load-balanced querying, automated failover and recovery,centralized configuration and more. Solr powers the search and navigation features of many of the world's largest internet sites.

somatic-sniper

Homepage:
Spack package:
Versions:
1.0.5.0
Build Dependencies:
cmake, ncurses
Link Dependencies:
ncurses
Description:
A tool to call somatic single nucleotide variants.

sombrero

Homepage:
Spack package:
Versions:
2021-08-16, 2021-07-31, 2021-07-14, 2021-07-08, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
A next-generation conjugate gradient benchmark from computational particle physics

sonlib

Homepage:
Spack package:
Versions:
master, 2020-04-01
Description:
sonLib is a compact C/Python library for sequence analysis in bioinformatics.

sortmerna

Homepage:
Spack package:
Versions:
2017-07-13
Build Dependencies:
cmake, zlib, sse2neon
Link Dependencies:
zlib, sse2neon
Description:
SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data

sos

Homepage:
Spack package:
Versions:
1.5.0, 1.4.5
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
libfabric, xpmem
Description:
Sandia OpenSHMEM.

sosflow

Homepage:
Spack package:
Versions:
spack
Build Dependencies:
cmake, libevpath, sqlite, pkgconfig, mpi
Link Dependencies:
libevpath, sqlite, pkgconfig, mpi
Description:
SOSflow provides a flexible, scalable, and programmable framework for observation, introspection, feedback, and control of HPC applications.

source-highlight

Homepage:
Spack package:
Versions:
master, 3.1.9, 3.1.8
Build Dependencies:
gnuconfig, boost, m4, autoconf, automake, libtool, texinfo
Link Dependencies:
boost, m4, autoconf, automake, libtool, texinfo
Description:
This program, given a source file, produces a document with syntax highlighting. It also provides a C++ highlight library (since version 3.0).

sowing

Homepage:
Spack package:
Versions:
1.1.26-p1, 1.1.25-p1, 1.1.23-p1
Build Dependencies:
gnuconfig
Description:
Sowing generates Fortran interfaces and documentation for PETSc and MPICH.

sox

Homepage:
Spack package:
Versions:
14.4.2
Build Dependencies:
gnuconfig, bzip2, flac, id3lib, libvorbis, opus, lame, libmad
Link Dependencies:
bzip2, flac, id3lib, libvorbis, opus, lame, libmad
Description:
SoX, the Swiss Army knife of sound processing programs.

sp

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
cmake
Description:
The spectral transform library splib contains FORTRAN subprograms to be used for a variety of spectral transform functions. This is part of the NCEPLIBS project.

spack

Homepage:
Spack package:
Versions:
develop, 0.17.0, 0.16.3, 0.16.2, 0.16.1, 0.16.0
Run Dependencies:
python, py-ipython, clingo-bootstrap, bzip2, gzip, tar, unzip, xz, zstd, bash, file, gmake, patch, ccache, curl, git, mercurial, subversion, tcl, lmod, binutils, gnupg, patchelf, py-boto3, py-isort, py-mypy, py-black, py-flake8, py-sphinx, py-sphinxcontrib-programoutput, py-sphinx-rtd-theme, graphviz
Description:
Spack is a multi-platform package manager that builds and installs multiple versions and configurations of software. It works on Linux, macOS, and many supercomputers. Spack is non-destructive: installing a new version of a package does not break existing installations, so many configurations of the same package can coexist.

spades

Homepage:
Spack package:
Versions:
3.15.3, 3.15.0, 3.14.1, 3.13.0, 3.12.0, 3.11.1, 3.10.1
Build Dependencies:
cmake, python, zlib, bzip2
Link Dependencies:
zlib, bzip2
Run Dependencies:
python
Description:
SPAdes - St. Petersburg genome assembler - is intended for both standard isolates and single-cell MDA bacteria assemblies.

span-lite

Homepage:
Spack package:
Versions:
0.5.0, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cmake
Description:
A single-file header-only version of a C++20-like span for C++98, C++11 and later

spark

Homepage:
Spack package:
Versions:
3.1.1, 3.0.2, 3.0.1, 2.4.7, 2.3.0, 2.1.0, 2.0.2, 2.0.0, 1.6.2, 1.6.1, 1.6.0
Build Dependencies:
java, hadoop
Run Dependencies:
java, hadoop
Description:
Apache Spark is a fast and general engine for large-scale data processing.

sparrow

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
cmake, eigen, boost, py-pybind11, py-pip, yaml-cpp, cereal, googletest
Link Dependencies:
eigen, boost, py-pybind11, yaml-cpp, cereal, googletest
Description:
Sparrow: fast semiempirical quantum chemical calculations. When publishing results obtained with Sparrow, please cite the corresponding release as archived on Zenodo (DOI 10.5281/zenodo.3244105; please use the DOI of the respective release). In addition, we kindly request you to cite the following article when using Sparrow: T. Husch, A. C. Vaucher, M. Reiher, "Semiempirical molecular orbital models based on the neglect of diatomic differential overlap approximation", Int. J. Quantum Chem., 2018, 118, e25799.

sparse

Homepage:
Spack package:
Versions:
1.4b
Description:
An open source sparse linear equation solver.

sparsehash

Homepage:
Spack package:
Versions:
2.0.4, 2.0.3
Build Dependencies:
gnuconfig
Description:
Sparse and dense hash-tables for C++ by Google

sparskit

Homepage:
Spack package:
Versions:
develop
Description:
SPARSKIT: A basic tool-kit for sparse matrix computations (Version 2). Made by Yousef Saad, University of Minnesota.

sparta

Homepage:
Spack package:
Versions:
1.25
Build Dependencies:
bowtie2, python, py-scipy, py-numpy
Link Dependencies:
bowtie2
Run Dependencies:
python, py-scipy, py-numpy
Description:
small RNA-PARE Target Analyzer (sPARTA) is a tool which utilizes high- throughput sequencing to profile genome-wide cleavage products.

spath

Homepage:
Spack package:
Versions:
main, 0.1.0, 0.0.2, 0.0.1
Build Dependencies:
cmake, mpi
Link Dependencies:
zlib, mpi
Description:
Represent and manipulate file system paths

spdlog

Homepage:
Spack package:
Versions:
1.9.2, 1.9.1, 1.9.0, 1.8.5, 1.8.4, 1.8.3, 1.8.2, 1.8.1, 1.8.0, 1.7.0, 1.6.1, 1.6.0, 1.5.0, 1.4.2, 1.4.1, 1.2.1, 1.2.0, 1.1.0, 1.0.0, 0.17.0, 0.16.3, 0.16.2, 0.16.1, 0.16.0, 0.14.0, 0.13.0, 0.12.0, 0.11.0, 0.10.0, 0.9.0
Build Dependencies:
cmake, fmt
Link Dependencies:
fmt
Description:
Very fast, header only, C++ logging library

specfem3d-globe

Homepage:
Spack package:
Versions:
7.0.2
Build Dependencies:
cuda, gnuconfig, mpi, opencl
Link Dependencies:
cuda, mpi, opencl
Description:
Program specfem3D from SPECFEM3D_GLOBE is a 3-D spectral-element solver for the Earth. It uses a mesh generated by program meshfem3D.

spectra

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0, 0.9.0
Build Dependencies:
cmake, eigen
Link Dependencies:
cmake, eigen
Description:
Spectra stands for Sparse Eigenvalue Computation Toolkit as a Redesigned ARPACK. It is a C++ library for large scale eigenvalue problems, built on top of Eigen, an open source linear algebra library. Spectra is implemented as a header-only C++ library, whose only dependency, Eigen, is also header-only. Hence Spectra can be easily embedded in C++ projects that require calculating eigenvalues of large matrices.

spectre

Homepage:
Spack package:
Versions:
develop, 2022.05.05, 2022.04.04, 2022.03.07, 2022.02.17, 2022.02.08, 2022.01.03, 2021.12.15
Build Dependencies:
cmake, ninja, python, charmpp, blaze, boost, brigand, gsl, hdf5, jemalloc, libsharp, libxsmm, blas, lapack, yaml-cpp, py-numpy, py-scipy, py-h5py, py-pybind11, py-matplotlib, doxygen, perl, py-beautifulsoup4, py-pybtex, py-nbconvert
Link Dependencies:
charmpp, blaze, boost, brigand, gsl, hdf5, jemalloc, libsharp, libxsmm, blas, lapack, yaml-cpp
Run Dependencies:
python, py-numpy, py-scipy, py-h5py, py-matplotlib
Test Dependencies:
catch2, py-numpy, py-scipy, py-h5py
Description:
The SpECTRE numerical relativity code. SpECTRE is an open-source code for multi-scale, multi-physics problems in astrophysics and gravitational physics. In the future, we hope that it can be applied to problems across discipline boundaries in fluid dynamics, geoscience, plasma physics, nuclear physics, and engineering. It runs at petascale and is designed for future exascale computers. SpECTRE is being developed in support of our collaborative Simulating eXtreme Spacetimes (SXS) research program into the multi-messenger astrophysics of neutron star mergers, core-collapse supernovae, and gamma-ray bursts.

spectrum-mpi

Homepage:
Spack package:
Versions:
10.4
Description:
IBM MPI implementation from Spectrum MPI.

speex

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig
Description:
Speex is an Open Source/Free Software patent-free audio compression format designed for speech.

speexdsp

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, fftw-api
Link Dependencies:
fftw-api
Description:
SpeexDSP is a patent-free, Open Source/Free Software DSP library.

spfft

Homepage:
Spack package:
Versions:
develop, master, 1.0.6, 1.0.5, 1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0, 0.9.13, 0.9.12, 0.9.11, 0.9.10, 0.9.9, 0.9.8
Build Dependencies:
cuda, cmake, fftw-api, mpi, hip, rocfft, hipfft
Link Dependencies:
cuda, fftw-api, mpi, hip, rocfft, hipfft
Description:
Sparse 3D FFT library with MPI, OpenMP, CUDA and ROCm support.

spglib

Homepage:
Spack package:
Versions:
1.16.1, 1.16.0, 1.15.1, 1.15.0, 1.14.1, 1.14.0, 1.13.0, 1.12.2, 1.12.1, 1.12.0, 1.11.2.1, 1.11.2, 1.11.1.2, 1.11.1, 1.11.0, 1.10.4, 1.10.3, 1.10.2, 1.10.1, 1.10.0
Build Dependencies:
cmake
Description:
C library for finding and handling crystal symmetries.

sph2pipe

Homepage:
Spack package:
Versions:
2.5
Build Dependencies:
cmake
Description:
Sph2pipe is a portable tool for converting SPHERE files to other formats.

spherepack

Homepage:
Spack package:
Versions:
3.2
Description:
SPHEREPACK - A Package for Modeling Geophysical Processes

spindle

Homepage:
Spack package:
Versions:
0.12, 0.8.1
Build Dependencies:
gnuconfig, launchmon, mpi
Link Dependencies:
launchmon, mpi
Description:
Spindle improves the library-loading performance of dynamically linked HPC applications. Without Spindle large MPI jobs can overload on a shared file system when loading dynamically linked libraries, causing site-wide performance problems.

spiner

Homepage:
Spack package:
Versions:
main, 1.4.0
Build Dependencies:
cuda, cmake, catch2, ports-of-call, kokkos, hdf5, python, py-numpy, py-matplotlib, py-sphinx, py-sphinx-rtd-theme, py-sphinx-multiversion, llvm
Link Dependencies:
cuda, cmake, catch2, ports-of-call, kokkos, hdf5, python, py-numpy, py-matplotlib, py-sphinx, py-sphinx-rtd-theme, py-sphinx-multiversion, llvm
Description:
Spiner: Performance portable routines for generic, tabulated, multi- dimensional data

spiral-package-fftx

Homepage:
Spack package:
Versions:
develop, main, 1.1.1, 1.1.0, 1.0.0
Build Dependencies:
spiral-software
Run Dependencies:
spiral-software
Description:
This is the SPIRAL package for FFTX: FFTX is the exascale follow-on to the FFTW open source discrete FFT package for executing the Fast Fourier Transform as well as higher-level operations composed of linear operations combined with DFT transforms.

spiral-package-hcol

Homepage:
Spack package:
Versions:
master, 1.0.0
Build Dependencies:
spiral-software
Run Dependencies:
spiral-software
Description:
This is the SPIRAL package for the Hybrid Control Operator Language (HCOL).

spiral-package-mpi

Homepage:
Spack package:
Versions:
develop, main, 1.0.0
Build Dependencies:
spiral-software
Run Dependencies:
spiral-software
Description:
This is the SPIRAL package for MPI.

spiral-package-simt

Homepage:
Spack package:
Versions:
develop, main, 1.1.0, 1.0.0
Build Dependencies:
spiral-software
Run Dependencies:
spiral-software
Description:
This is the SPIRAL package for SIMT: SIMT, single instruction multiple threads, is used to generate code for GPUs and multi-threading aplications.

spiral-software

Homepage:
Spack package:
Versions:
develop, master, 8.4.0, 8.3.0, 8.2.1, 8.2.0
Build Dependencies:
cmake
Description:
SPIRAL is a program generation system for linear transforms and other mathematical functions that produces very high performance code for a wide spectrum of hardware platforms.

spla

Homepage:
Spack package:
Versions:
develop, master, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.0, 1.2.1, 1.2.0, 1.1.1, 1.1.0, 1.0.0
Build Dependencies:
cmake, mpi, blas, cuda, rocblas, hip, openblas, amdblis, blis, intel-mkl
Link Dependencies:
mpi, blas, cuda, rocblas, hip, openblas, amdblis, blis, intel-mkl
Description:
Specialized Parallel Linear Algebra, providing distributed GEMM functionality for specific matrix distributions with optional GPU acceleration.

spm

Homepage:
Spack package:
Versions:
12_r7219
Build Dependencies:
zip
Run Dependencies:
matlab
Description:
Statistical Parametric Mapping refers to the construction and assessment of spatially extended statistical processes used to test hypotheses about functional imaging data. These ideas have been instantiated in software that is called SPM.

spot

Homepage:
Spack package:
Versions:
2.9.4, 1.99.3, 1.2.6
Build Dependencies:
gnuconfig, python, boost
Link Dependencies:
python, boost
Description:
Spot is a C++11 library for omega-automata manipulation and model checking.

sprng

Homepage:
Spack package:
Versions:
5.0
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
SPRNG: A Scalable Library For Pseudorandom Number Generation Sprng is a distributed process-aware random number generator that avoids correlations in random number sequences across processes.

sqlcipher

Homepage:
Spack package:
Versions:
4.4.1, 4.4.0, 4.3.0, 4.2.0, 4.1.0, 4.0.1, 4.0.0, 3.4.2
Build Dependencies:
gnuconfig, openssl, tcl, zlib
Link Dependencies:
openssl, zlib
Description:
SQLCipher is an SQLite extension that provides 256 bit AES encryption of database files.

sqlite

Homepage:
Spack package:
Versions:
3.38.5, 3.38.3, 3.37.2, 3.37.1, 3.37.0, 3.36.0, 3.35.5, 3.35.4, 3.35.3, 3.34.0, 3.33.0, 3.32.3, 3.31.1, 3.30.1, 3.30.0, 3.29.0, 3.28.0, 3.27.2, 3.27.1, 3.27.0, 3.26.0
Build Dependencies:
gnuconfig, readline, zlib
Link Dependencies:
readline, zlib
Description:
SQLite is a C-language library that implements a small, fast, self- contained, high-reliability, full-featured, SQL database engine.

sqlite-jdbc

Homepage:
Spack package:
Versions:
3.32.3.2, 3.32.3.1, 3.32.3
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
SQLite JDBC, developed by Taro L. Saito, is a library for accessing and creating SQLite database files in Java.

sqlitebrowser

Homepage:
Spack package:
Versions:
3.10.1
Build Dependencies:
cmake, sqlite, qt
Link Dependencies:
sqlite, qt
Description:
DB Browser for SQLite (DB4S) is a high quality, visual, open source tool to create, design, and edit database files compatible with SQLite.

sqoop

Homepage:
Spack package:
Versions:
1.99.7
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Apache Sqoop is a tool designed for efficiently transferring bulk data between Apache Hadoop and structured datastores such as relational databases.

squashfs

Homepage:
Spack package:
Versions:
4.5.1, 4.5, 4.4, 4.3, 4.2, 4.1, 4.0
Build Dependencies:
zlib, lz4, lzo, xz, zstd
Link Dependencies:
zlib, lz4, lzo, xz, zstd
Description:
Squashfs - read only compressed filesystem

squashfuse

Homepage:
Spack package:
Versions:
master, 0.1.104, 0.1.103
Build Dependencies:
gnuconfig, fuse, pkgconfig, zlib, lz4, lzo, xz, zstd, m4, autoconf, automake, libtool
Link Dependencies:
fuse, zlib, lz4, lzo, xz, zstd
Description:
squashfuse - Mount SquashFS archives using FUSE

squid

Homepage:
Spack package:
Versions:
1.9g
Build Dependencies:
gnuconfig
Description:
C function library for sequence analysis.

sratoolkit

Homepage:
Spack package:
Versions:
2.10.9, 2.10.7, 2.9.6, 2.9.2, 2.8.2-1
Description:
The NCBI SRA Toolkit enables reading ("dumping") of sequencing files from the SRA database and writing ("loading") files into the .sra format.

srilm

Homepage:
Spack package:
Versions:
1.7.3
Build Dependencies:
iconv, liblbfgs, gawk, perl, binutils
Link Dependencies:
iconv, liblbfgs
Run Dependencies:
gawk, perl
Description:
SRILM (SRI Language Modeling Toolkit) is a toolkit for building and applying statistical language models (LMs), primarily for use in speech recognition, statistical tagging and segmentation, and machine translation.

sse2neon

Homepage:
Spack package:
Versions:
master
Description:
A C/C++ header file that converts Intel SSE intrinsics to Arm/Aarch64 NEON intrinsics.

sshfs

Homepage:
Spack package:
Versions:
3.7.1
Build Dependencies:
meson, ninja, glib, fuse, pkgconfig
Link Dependencies:
glib, fuse
Description:
SSHFS allows you to mount a remote filesystem using SFTP.

sshpass

Homepage:
Spack package:
Versions:
1.06, 1.05, 1.04, 1.03, 1.02, 1.01, 1.00
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
Sshpass is a tool for non-interactivly performing password authentication with SSH's so called "interactive keyboard password authentication". Most user should use SSH's more secure public key authentiaction instead.

ssht

Homepage:
Spack package:
Versions:
1.5.1, 1.5.0, 1.4.0, 1.3.7, 1.3.6, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.0
Build Dependencies:
cmake, fftw
Link Dependencies:
fftw
Description:
ssht: Spin spherical harmonic transforms. The SSHT code provides functionality to perform fast and exact spin spherical harmonic transforms based on the sampling theorem on the sphere derived in our paper: A novel sampling theorem on the sphere <http://dx.doi.org/10.1109/TSP.2011.2166394>.

ssmtp

Homepage:
Spack package:
Versions:
2.64
Build Dependencies:
gnuconfig, libnsl, openssl
Link Dependencies:
libnsl, openssl
Description:
A program that replaces sendmail on workstations that should send their mail via the departmental mailhub from which they pick up their mail.

sspace-longread

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
perl
Run Dependencies:
perl
Description:
SSPACE-LongRead is a stand-alone program for scaffolding pre-assembled contigs using long reads Note: A manual download is required for SSPACE- LongRead. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

sspace-standard

Homepage:
Spack package:
Versions:
3.0
Build Dependencies:
perl, perl-perl4-corelibs
Run Dependencies:
perl, perl-perl4-corelibs
Description:
SSPACE standard is a stand-alone program for scaffolding pre-assembled contigs using NGS paired-read data Note: A manual download is required for SSPACE-Standard. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

sst-core

Homepage:
Spack package:
Versions:
develop, master, 11.0.0, 10.1.0, 10.0.0, 9.1.0
Build Dependencies:
gnuconfig, python, mpi, zoltan, hdf5, zlib, autoconf, automake, libtool, m4, gettext
Link Dependencies:
mpi, zoltan, hdf5, zlib, gettext
Run Dependencies:
python
Description:
The Structural Simulation Toolkit (SST) core provides a parallel discrete event simulation (PDES) framework for performing architecture simulations of existing and proposed HPC systems

sst-dumpi

Homepage:
Spack package:
Versions:
master, 7.1.0, 6.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
The DUMPI package provides libraries to collect and read traces of MPI applications. Traces are created by linking an application with a library that uses the PMPI interface to intercept MPI calls. DUMPI records signatures of all MPI-1 and MPI-2 subroutine calls, return values, request information, and PAPI counters.

sst-elements

Homepage:
Spack package:
Versions:
develop, master, 11.0.0, 10.1.0, 10.0.0, 9.1.0
Build Dependencies:
gnuconfig, python, sst-core, intel-pin, dramsim2, dramsim3, sst-dumpi, flashdimmsim, hybridsim, nvdimmsim, goblin-hmc-sim, ramulator, hbm-dramsim2, otf, otf2, gettext, zlib, autoconf, automake, libtool, m4
Link Dependencies:
sst-core, intel-pin, dramsim2, dramsim3, sst-dumpi, flashdimmsim, hybridsim, nvdimmsim, goblin-hmc-sim, ramulator, hbm-dramsim2, otf, otf2, gettext, zlib
Run Dependencies:
python
Description:
SST Elements implements a range of components for performing architecture simulation from node-level to system-level using the SST discrete event core.

sst-macro

Homepage:
Spack package:
Versions:
develop, master, 11.0.0, 10.1.0, 10.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, binutils, zlib, otf2, llvm, mpi, sst-core, gettext
Link Dependencies:
zlib, otf2, llvm, mpi, sst-core, gettext
Description:
The Structural Simulation Toolkit Macroscale Element Library simulates large-scale parallel computer architectures for the coarse-grained study of distributed-memory applications. The simulator is driven from either a trace file or skeleton application. SST/macro's modular architecture can be extended with additional network models, trace file formats, software services, and processor models.

sst-transports

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, sst-macro
Link Dependencies:
sst-macro
Description:
Provides transports like uGNI and verbs that run in the simulator

stacks

Homepage:
Spack package:
Versions:
2.53, 2.3b, 1.46
Build Dependencies:
gnuconfig, perl, sparsehash, zlib
Link Dependencies:
sparsehash, zlib
Run Dependencies:
perl
Description:
Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform.

staden-io-lib

Homepage:
Spack package:
Versions:
1.14.8
Build Dependencies:
gnuconfig, zlib, curl
Link Dependencies:
zlib, curl
Description:
Io_lib is a library for reading/writing various bioinformatics file formats.

star

Homepage:
Spack package:
Versions:
2.7.6a, 2.7.0e, 2.7.0d, 2.6.1b, 2.6.1a, 2.6.0c, 2.6.0b, 2.6.0a, 2.5.4b, 2.5.4a, 2.5.3a, 2.5.2b, 2.5.2a, 2.4.2a
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
STAR is an ultrafast universal RNA-seq aligner.

star-ccm-plus

Homepage:
Spack package:
Versions:
16.06.008_01, 11.06.010_02
Description:
STAR-CCM+ (Computational Continuum Mechanics) CFD solver.

starlight

Homepage:
Spack package:
Versions:
313, 300
Build Dependencies:
cmake
Description:
STARlight is a Monte Carlo that simulates two-photon and photon-Pomeron interactions between relativistic nuclei and protons.

starpu

Homepage:
Spack package:
Versions:
develop, master, 1.3.9, 1.3.8, 1.3.7, 1.3.6, 1.3.5, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.8, 1.2.7, 1.2.6, 1.2.5, 1.2.4, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.6, git-1.3, git-1.2, git-1.1
Build Dependencies:
gnuconfig, pkgconfig, autoconf, automake, libtool, m4, hwloc, mpi, cuda, fxt, simgrid
Link Dependencies:
hwloc, mpi, cuda, fxt, simgrid
Description:
StarPU runtime system StarPU is a runtime support for scheduling applications written as task graphs on heterogeneous multi-core architectures. Tasks may define several implementations, for different architectures (e.g one implementation for CPUs, and one implementation for CUDA). StarPU takes care of scheduling and executing those tasks as efficiently as possible over the entire machine. It also provides a high-level data management library which enforces memory coherency over the differents processing units of the machine, and over a cluster when using distributed computing. Various data structures are supported mainline (vectors, dense matrices, CSR/BCSR/COO sparse matrices, ...), but application-specific data structures can also be supported.

startup-notification

Homepage:
Spack package:
Versions:
0.12
Build Dependencies:
gnuconfig, libx11, libxcb, xcb-util
Link Dependencies:
libx11, libxcb, xcb-util
Description:
startup-notification contains a reference implementation of the freedesktop startup notification protocol.

stat

Homepage:
Spack package:
Versions:
develop, 4.1.0, 4.0.2, 4.0.1, 4.0.0, 3.0.1, 3.0.0, 2.2.0, 2.1.0, 2.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, dyninst, fast-global-file-status, graphlib, graphviz, launchmon, mrnet, python, py-pygtk, py-xdot, swig, mpi, boost
Link Dependencies:
dyninst, fast-global-file-status, graphlib, graphviz, launchmon, mrnet, python, py-xdot, swig, mpi, boost
Run Dependencies:
graphviz, py-pygtk, py-enum34
Description:
Library to create, manipulate, and export graphs Graphlib.

stata

Homepage:
Spack package:
Versions:
16, 15
Run Dependencies:
libpng
Description:
STATA is a general-purpose statistical software package developed by StataCorp.

static-analysis-suite

Homepage:
Spack package:
Versions:
0.2.0, 0.1.4, 0.1.3
Build Dependencies:
cmake, python, llvm
Link Dependencies:
python, llvm
Description:
SAS (Static Analysis Suite) is a powerful tool for running static analysis on C++ code.

stc

Homepage:
Spack package:
Versions:
master, 0.9.0, 0.8.3, 0.8.2
Build Dependencies:
gnuconfig, java, ant, turbine, zsh, autoconf, automake, libtool
Run Dependencies:
java, turbine, zsh
Description:
STC: The Swift-Turbine Compiler

steps

Homepage:
Spack package:
Versions:
develop, 3.3.0, 3.2.0
Build Dependencies:
cmake, blas, lapack, mpi, petsc, python, py-cython
Link Dependencies:
blas, lapack, mpi, petsc, python, py-cython
Description:
STochastic Engine for Pathway Simulation

stinger

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Description:
The STINGER in-memory graph store and dynamic graph analysis platform. Millions to billions of vertices and edges at thousands to millions of updates per second.

storm

Homepage:
Spack package:
Versions:
2.3.0, 2.2.0, 2.1.0, 2.0.0, 1.2.3
Build Dependencies:
java
Run Dependencies:
java, zookeeper
Description:
Storm is a distributed realtime computation system. Similar to how Hadoop provides a set of general primitives for doing batch processing, Storm provides a set of general primitives for doing realtime computation.

stow

Homepage:
Spack package:
Versions:
2.3.1, 2.2.2, 2.2.0, 2.1.3, 2.1.2, 2.1.1, 2.1.0
Build Dependencies:
gnuconfig, perl
Link Dependencies:
perl
Description:
GNU Stow: a symlink farm manager GNU Stow is a symlink farm manager which takes distinct packages of software and/or data located in separate directories on the filesystem, and makes them appear to be installed in the same place.

strace

Homepage:
Spack package:
Versions:
5.17, 5.12, 5.11, 5.10, 5.9, 5.8, 5.7, 5.6, 5.5, 5.4, 5.3, 5.2, 5.1, 5.0, 4.21
Build Dependencies:
gnuconfig
Description:
Strace is a diagnostic, debugging and instructional userspace utility for Linux. It is used to monitor and tamper with interactions between processes and the Linux kernel, which include system calls, signal deliveries, and changes of process state.

stream

Homepage:
Spack package:
Versions:
5.10
Description:
The STREAM benchmark is a simple synthetic benchmark program that measures sustainable memory bandwidth (in MB/s) and the corresponding computation rate for simple vector kernels.

strelka

Homepage:
Spack package:
Versions:
2.9.10, 2.9.9, 2.9.8, 2.9.7, 2.9.6, 2.9.5, 2.9.4, 2.9.3, 2.9.2, 2.9.1, 2.9.0, 2.8.4, 2.8.3, 2.8.2
Build Dependencies:
cmake, python, zlib, bzip2, boost
Link Dependencies:
python, zlib, bzip2, boost
Description:
Somatic and germline small variant caller for mapped sequencing data.

stress

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig
Description:
stress is a deliberately simple workload generator for POSIX systems. It imposes a configurable amount of CPU, memory, I/O, and disk stress on the system. It is written in C, and is free software licensed under the GPLv2.

stress-ng

Homepage:
Spack package:
Versions:
0.12.06
Build Dependencies:
libaio, libbsd, judy, libatomic-ops, zlib, keyutils, libgcrypt, libcap
Link Dependencies:
libaio, libbsd, judy, libatomic-ops, zlib, keyutils, libgcrypt, libcap
Description:
stress-ng will stress test a computer system in various selectable ways. It was designed to exercise various physical subsystems of a computer as well as the various operating system kernel interfaces.

string-view-lite

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.0, 0.2.0, 0.1.0
Build Dependencies:
cmake
Description:
A single-file header-only version of a C++17-like string_view for C++98, C++11 and later

stringtie

Homepage:
Spack package:
Versions:
1.3.4d, 1.3.4a, 1.3.3b
Build Dependencies:
samtools
Link Dependencies:
samtools
Description:
StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts.

stripack

Homepage:
Spack package:
Versions:
develop
Description:
STRIPACK: Delaunay Triangulation rewritten in Fortran 90 by John Burkardt at https://people.sc.fsu.edu/~jburkardt/f_src/stripack/stripack.html The original Fortran 77 package STRIPACK is available from netlib as algorithm number 772 at https://www.netlib.org/toms/772.gz Dr. Renka's articles were published in the ACM Transactions on Mathematical Software, Vol. 23, No 3, September 1997 https://dl.acm.org/doi/10.1145/275323.275329

structure

Homepage:
Spack package:
Versions:
2.3.4
Description:
Structure is a free software package for using multi-locus genotype data to investigate population structure.

strumpack

Homepage:
Spack package:
Versions:
master, 6.3.1, 6.3.0, 6.2.1, 6.2.0, 6.1.0, 6.0.0, 5.1.1, 5.0.0, 4.0.0, 3.3.0, 3.2.0, 3.1.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, blas, lapack, openblas, scalapack, metis, parmetis, scotch, butterflypack, zfp, hipblas, rocsolver, slate
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, blas, lapack, openblas, scalapack, metis, parmetis, scotch, butterflypack, zfp, hipblas, rocsolver, slate
Description:
STRUMPACK -- STRUctured Matrix PACKage - provides linear solvers for sparse matrices and for dense rank-structured matrices, i.e., matrices that exhibit some kind of low-rank property. It provides a distributed memory fully algebraic sparse solver and preconditioner. The preconditioner is mostly aimed at large sparse linear systems which result from the discretization of a partial differential equation, but is not limited to any particular type of problem. STRUMPACK also provides preconditioned GMRES and BiCGStab iterative solvers.

su2

Homepage:
Spack package:
Versions:
7.3.1, 7.2.0, 7.1.1, 7.1.0, 7.0.8, 7.0.7, 7.0.6, 7.0.5, 7.0.4, 7.0.3, 7.0.2, 7.0.1, 7.0.0, 6.2.0
Build Dependencies:
meson, ninja, python, zlib
Link Dependencies:
zlib
Run Dependencies:
python
Description:
SU2 is a suite of open-source software tools written in C++ for the numerical solution of partial differential equations (PDE) and performing PDE constrained optimization.

sublime-text

Homepage:
Spack package:
Versions:
3.2.2.3211, 3.2.1.3207, 3.1.1.3176, 3.0.3126, 2.0.2
Run Dependencies:
gtkplus, glib, libx11, pcre, libffi, libxcb, libxau
Description:
Sublime Text is a sophisticated text editor for code, markup and prose.

subread

Homepage:
Spack package:
Versions:
2.0.2, 2.0.0, 1.6.4, 1.6.2, 1.6.0, 1.5.2
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
The Subread software package is a tool kit for processing next-gen sequencing data.

subversion

Homepage:
Spack package:
Versions:
1.14.1, 1.14.0, 1.13.0, 1.12.2, 1.9.7, 1.9.6, 1.9.5, 1.9.3, 1.8.17, 1.8.13
Build Dependencies:
gnuconfig, apr, apr-util, zlib, sqlite, expat, lz4, utf8proc, serf, gettext, perl, swig, perl-termreadkey
Link Dependencies:
apr, apr-util, zlib, sqlite, expat, lz4, utf8proc, serf, gettext, swig, perl-termreadkey
Run Dependencies:
perl
Description:
Apache Subversion - an open source version control system.

suite-sparse

Homepage:
Spack package:
Versions:
5.10.1, 5.10.0, 5.9.0, 5.8.1, 5.8.0, 5.7.2, 5.7.1, 5.6.0, 5.5.0, 5.4.0, 5.3.0, 5.2.0, 5.1.2, 5.1.0, 5.0.0, 4.5.6, 4.5.5, 4.5.3
Build Dependencies:
mpfr, gmp, blas, lapack, m4, cmake, metis, tbb, cuda
Link Dependencies:
mpfr, gmp, blas, lapack, metis, tbb, cuda
Description:
SuiteSparse is a suite of sparse matrix algorithms

sumaclust

Homepage:
Spack package:
Versions:
1.0.20
Description:
Sumaclust aims to cluster sequences in a way that is fast and exact at the same time.

sumo

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
cmake, python, py-setuptools, xerces-c, proj, fox, swig, java, gdal, ffmpeg, openscenegraph, gl2ps, eigen
Link Dependencies:
xerces-c, proj, fox, gdal, ffmpeg, openscenegraph, gl2ps, eigen
Run Dependencies:
python, java
Test Dependencies:
googletest
Description:
Eclipse SUMO is an open source, highly portable, microscopic and continuous road traffic simulation package designed to handle large road networks. It allows for intermodal simulation including pedestrians and comes with a large set of tools for scenario creation.

sundials

Homepage:
Spack package:
Versions:
develop, 6.2.0, 6.1.1, 6.1.0, 6.0.0, 5.8.0, 5.7.0, 5.6.1, 5.6.0, 5.5.0, 5.4.0, 5.3.0, 5.2.0, 5.1.0, 5.0.0, 4.1.0, 4.0.1, 3.2.1, 3.2.0, 3.1.2, 3.1.1, 3.1.0, 3.0.0, 2.7.0, 2.6.2
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, raja, caliper, lapack, hypre, magma, petsc, suite-sparse, superlu-dist, trilinos, superlu-mt
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, raja, caliper, lapack, hypre, magma, petsc, suite-sparse, superlu-dist, trilinos, superlu-mt
Description:
SUNDIALS (SUite of Nonlinear and DIfferential/ALgebraic equation Solvers)

suntans

Homepage:
Spack package:
Versions:
3.1
Build Dependencies:
libx11, mpi
Link Dependencies:
libx11, mpi
Description:
The Stanford unstructured-grid, nonhydrostatic, parallel coastal ocean model.

superchic

Homepage:
Spack package:
Versions:
4.01, 3.06, 3.05
Build Dependencies:
lhapdf, apfel
Link Dependencies:
lhapdf, apfel
Description:
SuperChic is a Fortran based Monte Carlo event generator for exclusive and photon-initiated production in proton and heavy ion collisions. A range of Standard Model final states are implemented, in most cases with spin correlations where relevant, and a fully differential treatment of the soft survival factor is given. Arbitrary user-defined histograms and cuts may be made, as well as unweighted events in the HEPEVT, HEPMC and LHE formats.

superlu

Homepage:
Spack package:
Versions:
5.3.0, 5.2.2, 5.2.1, 4.3, 4.2
Build Dependencies:
cmake, blas
Link Dependencies:
blas
Description:
SuperLU is a general purpose library for the direct solution of large, sparse, nonsymmetric systems of linear equations on high performance machines. SuperLU is designed for sequential machines.

superlu-dist

Homepage:
Spack package:
Versions:
develop, 7.2.0, 7.1.1, 7.1.0, 6.4.0, 6.3.1, 6.3.0, 6.2.0, 6.1.1, 6.1.0, 6.0.0, 5.4.0, 5.3.0, 5.2.2, 5.2.1, 5.1.3, 5.1.2, 5.1.0, 5.0.0, amd
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, mpi, blas, lapack, parmetis, metis, hipblas, rocsolver
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, mpi, blas, lapack, parmetis, metis, hipblas, rocsolver
Description:
A general purpose library for the direct solution of large, sparse, nonsymmetric systems of linear equations on high performance machines.

superlu-mt

Homepage:
Spack package:
Versions:
3.1
Build Dependencies:
blas
Link Dependencies:
blas
Description:
SuperLU is a general purpose library for the direct solution of large, sparse, nonsymmetric systems of linear equations on high performance machines. SuperLU_MT is designed for shared memory parallel machines.

supernova

Homepage:
Spack package:
Versions:
2.1.1, 2.0.1
Build Dependencies:
bcl2fastq2
Link Dependencies:
bcl2fastq2
Description:
Supernova is a software package for de novo assembly from Chromium Linked-Reads that are made from a single whole-genome library from an individual DNA source. A key feature of Supernova is that it creates diploid assemblies, thus separately representing maternal and paternal chromosomes over very long distances. Almost all other methods instead merge homologous chromosomes into single incorrect 'consensus' sequences. Supernova is the only practical method for creating diploid assemblies of large genomes. To install this package, you will need to go to the supernova download page of supernova, register with your email address and download supernova yourself. Spack will search your current directory for the download file. Alternatively, add this file yo a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

survey

Homepage:
Spack package:
Versions:
master, 1.0.4, 1.0.3, 1.0.2, 1.0.1.1, 1.0.1, 1.0.0
Build Dependencies:
cmake, libmonitor, papi, gotcha, llvm-openmp, mpi, python, py-setuptools, py-pip, py-pandas, py-psutil, py-sqlalchemy, py-pyyaml, py-seaborn, py-jinja2, py-matplotlib, py-more-itertools
Link Dependencies:
libmonitor, papi, gotcha, llvm-openmp, mpi
Run Dependencies:
libmonitor, papi, gotcha, llvm-openmp, python, py-pandas, py-psutil, py-sqlalchemy, py-pyyaml, py-seaborn, py-jinja2, py-matplotlib, py-more-itertools
Description:
Survey is a high level performance tool product from Trenza, Inc. The survey collector/analytics framework is a new generation, high level, lightweight multiplatform Linux tool set that targets metric collection for high level performance analysis of applications running on both single node and on large scale platforms, including the Cray platforms. The collector is designed to work on sequential, MPI, OpenMP, and hybrid codes and directly leverages several interfaces available for tools inside current MPI implementations including: MPICH, MVAPICH, MPT, and OpenMPI. It also supports multiple architectures and has been tested on machines based on Intel, AMD, ARM, and IBM P8/9 processors and integrated GPUs. Survey is a licensed product with the source not openly available. To access the survey source and build with spack please contact: Trenza Inc. via: dmont@trenzasynergy.com or jeg@trenzasynergy.com

sw4lite

Homepage:
Spack package:
Versions:
develop, 1.1, 1.0
Build Dependencies:
cuda, blas, lapack, mpi
Link Dependencies:
cuda, blas, lapack, mpi
Description:
Sw4lite is a bare bone version of SW4 intended for testing performance optimizations in a few important numerical kernels of SW4.

swan

Homepage:
Spack package:
Versions:
4131
Build Dependencies:
mpi, netcdf-fortran, libfabric
Link Dependencies:
mpi, netcdf-fortran, libfabric
Description:
SWAN is a third-generation wave model, developed at Delft University of Technology, that computes random, short-crested wind-generated waves in coastal regions and inland waters. For more information about SWAN, see a short overview of model features. This list reflects on the scientific relevance of the development of SWAN.

swap-assembler

Homepage:
Spack package:
Versions:
0.4
Build Dependencies:
mpich
Link Dependencies:
mpich
Description:
A scalable and fully parallelized genome assembler.

swarm

Homepage:
Spack package:
Versions:
3.0.0, 2.1.13
Description:
A robust and fast clustering method for amplicon-based studies.

swfft

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
mpi, fftw
Link Dependencies:
mpi, fftw
Description:
A stand-alone version of HACC's distributed-memory, pencil-decomposed, parallel 3D FFT.

swftools

Homepage:
Spack package:
Versions:
0.9.2
Build Dependencies:
gnuconfig, giflib, lame, poppler, freetype, jpeg, fftw
Link Dependencies:
giflib, lame, poppler, freetype, jpeg, fftw
Description:
SWFTools is a collection of utilities for working with Adobe Flash files (SWF files). The tool collection includes programs for reading SWF files, combining them, and creating them from other content (like images, sound files, videos or sourcecode). SWFTools is released under the GPL.

swiftsim

Homepage:
Spack package:
Versions:
0.9.0, 0.7.0, 0.3.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, gsl, mpi, metis, hdf5
Link Dependencies:
gsl, mpi, metis, hdf5
Description:
SPH With Inter-dependent Fine-grained Tasking (SWIFT) provides astrophysicists with a state of the art framework to perform particle based simulations.

swig

Homepage:
Spack package:
Versions:
master, 4.0.2-fortran, 4.0.2, 4.0.1, 4.0.0, 3.0.12, 3.0.11, 3.0.10, 3.0.8, 3.0.2, 2.0.12, 2.0.2, 1.3.40, fortran
Build Dependencies:
gnuconfig, pcre, autoconf, automake, libtool, yacc, pkgconfig
Link Dependencies:
pcre
Description:
SWIG is an interface compiler that connects programs written in C and C++ with scripting languages such as Perl, Python, Ruby, and Tcl. It works by taking the declarations found in C/C++ header files and using them to generate the wrapper code that scripting languages need to access the underlying C/C++ code. In addition, SWIG provides a variety of customization features that let you tailor the wrapping process to suit your application.

swipl

Homepage:
Spack package:
Versions:
8.2.0, 8.0.3
Build Dependencies:
cmake, uuid, readline, libarchive, gmp, unwind, unixodbc, openssl, zlib, libxt, libx11, libjpeg, libxpm, libxft, fontconfig, pkgconfig
Link Dependencies:
uuid, readline, libarchive, gmp, unwind, unixodbc, openssl, zlib, libxt, libx11, libjpeg, libxpm, libxft, fontconfig
Description:
SWI-Prolog is a versatile implementation of the Prolog language. Although SWI-Prolog gained its popularity primarily in education, its development is mostly driven by the needs for application development. This is facilitated by a rich interface to other IT components by supporting many document types and (network) protocols as well as a comprehensive low-level interface to C that is the basis for high-level interfaces to C++, Java (bundled), C#, Python, etc (externally available). Data type extensions such as dicts and strings as well as full support for Unicode and unbounded integers simplify smooth exchange of data with other components.

symengine

Homepage:
Spack package:
Versions:
master, 0.9.0, 0.8.1, 0.7.0, 0.6.0, 0.5.0, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cmake, boost, cereal, gmp, llvm, mpc, mpfr, flint, piranha
Link Dependencies:
boost, cereal, gmp, llvm, mpc, mpfr, flint, piranha
Description:
SymEngine is a fast symbolic manipulation library, written in C++.

sympol

Homepage:
Spack package:
Versions:
0.1.8
Build Dependencies:
cmake, bliss, boost, gmp, lrslib
Link Dependencies:
bliss, boost, gmp, lrslib
Description:
SymPol is a C++ tool to work with symmetric polyhedra

sys-sage

Homepage:
Spack package:
Versions:
master, 0.1.1-alpha.2
Build Dependencies:
cmake, libxml2
Link Dependencies:
libxml2
Description:
A library for capturing hadrware topology and attributes of compute systems.

sysbench

Homepage:
Spack package:
Versions:
1.0.20, 1.0.19, 1.0.18
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mysql-client
Link Dependencies:
mysql-client
Description:
Scriptable database and system performance benchmark.

syscalc

Homepage:
Spack package:
Versions:
1.1.7
Build Dependencies:
lhapdf
Link Dependencies:
lhapdf
Description:
A tool to derive theoretical systematic uncertainties

sysfsutils

Homepage:
Spack package:
Versions:
0_5, 0_4_0, 0_3_0
Build Dependencies:
gnuconfig
Description:
This package's purpose is to provide a set of utilities for interfacing with sysfs, a virtual filesystem in Linux kernel versions 2.5+ that provides a tree of system devices. While a filesystem is a very useful interface, we've decided to provide a stable programming interface that will hopefully make it easier for applications to query system devices and their attributes.

sysget

Homepage:
Spack package:
Versions:
2.3, 2.2, 2.1
Description:
sysget is a bridge that lets you use one syntax to every package manager on every unix-based operating system.

sysstat

Homepage:
Spack package:
Versions:
12.4.5, 12.2.0
Build Dependencies:
gnuconfig, pkgconfig, gettext, lm-sensors
Link Dependencies:
gettext, lm-sensors
Description:
The sysstat package contains various utilities, common to many commercial Unixes, to monitor system performance and usage activity Sysstat also contains tools you can schedule via cron or systemd to collect and historize performance and activity data.

systemc

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
cmake
Description:
SystemC: System level modeling, design exploration, performance modeling, and more.

systemtap

Homepage:
Spack package:
Versions:
4.3, 4.2, 4.1
Build Dependencies:
gnuconfig, gettext, elfutils, sqlite, py-setuptools, python
Link Dependencies:
gettext, elfutils, sqlite
Run Dependencies:
python
Description:
SystemTap provides free software (GPL) infrastructure to simplify the gathering of information about the running Linux system. This assists diagnosis of a performance or functional problem. SystemTap eliminates the need for the developer to go through the tedious and disruptive instrument, recompile, install, and reboot sequence that may be otherwise required to collect data.

sz

Homepage:
Spack package:
Versions:
master, 2.1.12, 2.1.11.1, 2.1.11, 2.1.10, 2.1.9, 2.1.8.3, 2.1.8.1, 2.1.8.0, 2.0.2.0, 1.4.13.5, 1.4.13.4, 1.4.13.3, 1.4.13.2, 1.4.13.0, 1.4.12.3, 1.4.12.1, 1.4.11.1, 1.4.11.0, 1.4.10.0, 1.4.9.2
Build Dependencies:
cmake, zlib, zstd, python, swig, py-numpy, hdf5, netcdf-c
Link Dependencies:
zlib, zstd, python, py-numpy, hdf5, netcdf-c
Run Dependencies:
python, py-numpy
Description:
Error-bounded Lossy Compressor for HPC Data

tabix

Homepage:
Spack package:
Versions:
2013-12-16
Build Dependencies:
perl, python
Link Dependencies:
zlib
Run Dependencies:
perl, python
Description:
Generic indexer for TAB-delimited genome position files

tajo

Homepage:
Spack package:
Versions:
0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.1, 0.10.0
Run Dependencies:
java
Description:
Tajo is a relational and distributed data warehouse system for Hadoop Tajo is designed for low-latency and scalable ad-hoc queries, online aggregation and ETL on large-data sets by leveraging advanced database techniques. It supports SQL standards. It has its own query engine which allows direct control of distributed execution and data flow. As a result, Tajo has a variety of query evaluation strategies and more optimization opportunities. In addition, Tajo will have a native columnar execution and and its optimizer.

talass

Homepage:
Spack package:
Versions:
2018-10-29
Build Dependencies:
cmake
Description:
TALASS: Topological Analysis of Large-Scale Simulations This package compiles the talass tool chain thar implements various topological algorithms to analyze large scale data. The package is organized hierarchical FileFormat < Statistics < StreamingTopology and any of the subsets can be build stand- alone.

talloc

Homepage:
Spack package:
Versions:
2.3.1, 2.3.0, 2.1.9
Build Dependencies:
gnuconfig, python
Link Dependencies:
python
Run Dependencies:
python
Description:
Talloc provides a hierarchical, reference counted memory pool system with destructors. It is the core memory allocator used in Samba.

tamaas

Homepage:
Spack package:
Versions:
master, 2.4.0, 2.3.1, 2.3.0
Build Dependencies:
scons, python, thrust, boost, fftw-api, py-numpy, py-pybind11, py-wheel
Link Dependencies:
fftw-api
Run Dependencies:
python, py-numpy, py-scipy
Description:
Tamaas is a C++ library with a Python interface that efficiently solves contact mechanics problems with periodic rough surfaces, plasticity, adhesion and friction.

tangram

Homepage:
Spack package:
Versions:
master, 1.0.5, 1.0.1
Build Dependencies:
cmake, mpi, wonton
Link Dependencies:
mpi, wonton
Description:
Tangram is an material interface reconstruction package used in multimaterial ALE codes and multi-material remapping (https://github.com/laristra/portage)

tantan

Homepage:
Spack package:
Versions:
13
Description:
tantan is a tool to mask simple regions (low complexity and short-period tandem repeats) in DNA, RNA, and protein sequences.

tar

Homepage:
Spack package:
Versions:
1.34, 1.32, 1.31, 1.30, 1.29, 1.28
Build Dependencies:
gnuconfig, iconv
Link Dependencies:
iconv
Run Dependencies:
gzip, pigz, zstd, xz, bzip2
Description:
GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.

targetp

Homepage:
Spack package:
Versions:
1.1b
Build Dependencies:
chlorop, signalp
Link Dependencies:
chlorop, signalp
Run Dependencies:
perl, awk
Description:
TargetP predicts the subcellular location of eukaryotic protein sequences. Note: A manual download is required for TargetP. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

task

Homepage:
Spack package:
Versions:
2.5.1, 2.4.4
Build Dependencies:
cmake, gnutls, uuid
Link Dependencies:
gnutls, uuid
Description:
Feature-rich console based todo list manager

taskd

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
cmake, uuid, gnutls
Link Dependencies:
uuid, gnutls
Description:
TaskWarrior task synchronization daemon

taskflow

Homepage:
Spack package:
Versions:
master, 2.7.0
Build Dependencies:
cmake
Description:
Taskflow helps you quickly write parallel tasks programs in modern C++.

tasmanian

Homepage:
Spack package:
Versions:
develop, 7.7, 7.5, 7.3, 7.1, 7.0, 6.0, 5.1, 5.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, python, py-numpy, mpi, blas, lapack, rocblas, rocsparse, rocsolver, magma
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda
Run Dependencies:
hip, cuda, cmake, python, py-numpy, mpi, blas, lapack, rocblas, rocsparse, rocsolver, magma
Description:
The Toolkit for Adaptive Stochastic Modeling and Non-Intrusive ApproximatioN is a robust library for high dimensional integration and interpolation as well as parameter calibration.

tassel

Homepage:
Spack package:
Versions:
2017-07-22
Build Dependencies:
java, perl
Run Dependencies:
java, perl
Description:
TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.

tau

Homepage:
Spack package:
Versions:
master, 2.31.1, 2.31, 2.30.2, 2.30.1, 2.30, 2.29.1, 2.29, 2.28.2, 2.28.1, 2.28, 2.27.2p1, 2.27.2, 2.27.1, 2.27, 2.26.3, 2.26.2, 2.26.1, 2.26, 2.25, 2.24.1, 2.24, 2.23.1
Build Dependencies:
cmake, pdt, scorep, otf2, likwid, papi, libdwarf, elf, binutils, python, libunwind, mpi, cuda, gasnet, adios2, sqlite, hwloc, rocprofiler-dev, roctracer-dev, hsa-rocr-dev, oneapi-level-zero
Link Dependencies:
zlib, pdt, scorep, otf2, likwid, papi, libdwarf, elf, binutils, python, libunwind, mpi, cuda, gasnet, adios2, sqlite, hwloc, rocprofiler-dev, roctracer-dev, hsa-rocr-dev, oneapi-level-zero
Run Dependencies:
mpi, java
Description:
A portable profiling and tracing toolkit for performance analysis of parallel programs written in Fortran, C, C++, UPC, Java, Python.

tauola

Homepage:
Spack package:
Versions:
1.1.8
Build Dependencies:
gnuconfig, hepmc, hepmc3, lhapdf
Link Dependencies:
hepmc, hepmc3, lhapdf
Description:
Tauola is a event generator for tau decays.

tbl2asn

Homepage:
Spack package:
Versions:
2022-04-26, 2020-03-01
Description:
Tbl2asn is a command-line program that automates the creation of sequence records for submission to GenBank.

tcl

Homepage:
Spack package:
Versions:
8.6.12, 8.6.11, 8.6.10, 8.6.8, 8.6.6, 8.6.5, 8.6.4, 8.6.3, 8.5.19
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
Tcl (Tool Command Language) is a very powerful but easy to learn dynamic programming language, suitable for a very wide range of uses, including web and desktop applications, networking, administration, testing and many more. Open source and business-friendly, Tcl is a mature yet evolving language that is truly cross platform, easily deployed and highly extensible.

tcl-itcl

Homepage:
Spack package:
Versions:
4.0.4
Build Dependencies:
gnuconfig, tcl
Run Dependencies:
tcl
Description:
[incr Tcl] is the most widely used O-O system for Tcl. The name is a play on C++, and [incr Tcl] provides a similar object model, including multiple inheritence and public and private classes and variables.

tcl-tcllib

Homepage:
Spack package:
Versions:
1.19, 1.18, 1.17, 1.16, 1.15, 1.14
Build Dependencies:
gnuconfig, tcl
Run Dependencies:
tcl
Description:
Tcllib is a collection of utility modules for Tcl. These modules provide a wide variety of functionality, from implementations of standard data structures to implementations of common networking protocols. The intent is to collect commonly used function into a single library, which users can rely on to be available and stable.

tcl-tclxml

Homepage:
Spack package:
Versions:
3.2, 3.1
Build Dependencies:
gnuconfig, tcl, tcl-tcllib, libxml2, libxslt
Link Dependencies:
tcl-tcllib, libxml2, libxslt
Run Dependencies:
tcl
Description:
TclXML is an API for parsing XML documents using the Tcl scripting language. It is also a package including a DOM implementation (TclDOM) and XSL Transformations (TclXSLT). These allow Tcl scripts to read, manipulate and write XML documents.

tclap

Homepage:
Spack package:
Versions:
1.2.2, 1.2.1
Build Dependencies:
gnuconfig
Description:
Templatized C++ Command Line Parser

tcoffee

Homepage:
Spack package:
Versions:
2017-08-17
Build Dependencies:
perl, blast-plus, dialign-tx, viennarna, clustalw, tmalign, muscle, mafft, pcma, poamsa, probconsrna
Link Dependencies:
blast-plus, dialign-tx, viennarna, clustalw, tmalign, muscle, mafft, pcma, poamsa, probconsrna
Run Dependencies:
perl
Description:
T-Coffee is a multiple sequence alignment program.

tcpdump

Homepage:
Spack package:
Versions:
4.99.0, 4.9.3, 4.9.2, 4.9.1
Build Dependencies:
gnuconfig, libpcap
Link Dependencies:
libpcap
Description:
Tcpdump prints out a description of the contents of packets on a network interface that match the Boolean expression; the description is preceded by a time stamp, printed, by default, as hours, minutes, seconds, and fractions of a second since midnight.

tcptrace

Homepage:
Spack package:
Versions:
6.6.7
Build Dependencies:
gnuconfig, bison, flex, libpcap
Link Dependencies:
libpcap
Description:
tcptrace is a tool written by Shawn Ostermann at Ohio University for analysis of TCP dump files. It can take as input the files produced by several popular packet-capture programs, including tcpdump, snoop, etherpeek, HP Net Metrix, and WinDump.

tcsh

Homepage:
Spack package:
Versions:
6.24.00, 6.22.02, 6.21.00, 6.20.00
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
Tcsh is an enhanced but completely compatible version of csh, the C shell. Tcsh is a command language interpreter which can be used both as an interactive login shell and as a shell script command processor. Tcsh includes a command line editor, programmable word completion, spelling correction, a history mechanism, job control and a C language like syntax.

tdengine

Homepage:
Spack package:
Versions:
2.0.3.2, 2.0.3.1
Build Dependencies:
cmake
Description:
An open-source big data platform designed and optimized for the Internet of Things (IoT).

tealeaf

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. TeaLeaf is a mini-app that solves the linear heat conduction equation on a spatially decomposed regularly grid using a 5 point stencil with implicit solvers.

teckit

Homepage:
Spack package:
Versions:
2.5.9
Build Dependencies:
gnuconfig, expat, zlib
Link Dependencies:
expat, zlib
Description:
TECkit is a low-level toolkit intended to be used by applications for conversions between text encodings. For example, it can be used when importing legacy text into a Unicode-based application. The primary component of TECkit is a library: the TECkit engine. The engine relies on mapping tables in a specific, documented binary format. The TECkit compiler creates these tables from plain-text, human-readable descriptions.

tecplot

Homepage:
Spack package:
Versions:
2018r2, 2017r1
Description:
Tecplot 360 is a Computational Fluid Dynamics (CFD) and numerical simulation software package used in post-processing simulation results. It is also used in chemistry applications to visualize molecule structure by post-processing charge density data.

telegraf

Homepage:
Spack package:
Versions:
1.20.3, 1.19.3
Build Dependencies:
go
Description:
Telegraf is an agent for collecting, processing, aggregating, and writing metrics.

tempestremap

Homepage:
Spack package:
Versions:
2.0.5, 2.0.4, 2.0.3, 2.0.2, 2.0.1, 2.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, netcdf-c, blas, lapack
Link Dependencies:
netcdf-c, blas, lapack
Description:
TempestRemap is a conservative, consistent and monotone remapping package for arbitrary grid geometry with support for finite volumes and finite elements. There is still quite a bit of work to be done, but any feedback is appreciated on the software in its current form

templight

Homepage:
Spack package:
Versions:
develop, 2019.01.09, 2018.07.20
Build Dependencies:
cmake, python, py-lit
Link Dependencies:
python
Run Dependencies:
py-lit
Description:
Templight is a Clang-based tool to profile the time and memory consumption of template instantiations and to perform interactive debugging sessions to gain introspection into the template instantiation process.

templight-tools

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
Supporting tools for the Templight Profiler

tengine

Homepage:
Spack package:
Versions:
2.3.2, 2.3.1, 2.3.0
Build Dependencies:
gnuconfig, pcre
Link Dependencies:
pcre
Description:
A distribution of Nginx with some advanced features.

tensorflow-serving-client

Homepage:
Spack package:
Versions:
2.3.0, 2.2.0, 2.1.0, 2.0.0
Build Dependencies:
cmake, protobuf, grpc
Link Dependencies:
protobuf, grpc
Description:
A prebuilt tensorflow serving client from the tensorflow serving proto files

tensorpipe

Homepage:
Spack package:
Versions:
master, 2021-05-13, 2021-03-04, 2021-02-09, 2020-09-28, 2020-06-26
Build Dependencies:
cmake, ninja, libuv
Link Dependencies:
libuv
Description:
A tensor-aware point-to-point communication primitive for machine learning.

termcap

Homepage:
Spack package:
Versions:
1.3.1, 1.3
Build Dependencies:
gnuconfig
Description:
This is the GNU termcap library, a library of C functions that enable programs to send control strings to terminals in a way independent of the terminal type.

tesseract

Homepage:
Spack package:
Versions:
4.1.1, 4.1.0, 4.0.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, doxygen, asciidoc, libxslt, pkgconfig, leptonica, libarchive, curl, icu4c, cairo, pango, java
Link Dependencies:
leptonica, libarchive, curl, icu4c, cairo, pango, java
Description:
Tesseract Open Source OCR Engine.

testdfsio

Homepage:
Spack package:
Versions:
0.0.1
Build Dependencies:
java, maven
Run Dependencies:
java, hadoop
Description:
A corrected and enhanced version of Apache Hadoop TestDFSIO

testu01

Homepage:
Spack package:
Versions:
1.2.3
Build Dependencies:
gnuconfig
Description:
TestU01 is a software library, implemented in the ANSI C language, and offering a collection of utilities for the empirical statistical testing of uniform random number generators.

tetgen

Homepage:
Spack package:
Versions:
1.6.0, 1.5.1, 1.5.0, 1.4.3
Description:
TetGen is a program and library that can be used to generate tetrahedral meshes for given 3D polyhedral domains. TetGen generates exact constrained Delaunay tetrahedralizations, boundary conforming Delaunay meshes, and Voronoi paritions.

tethex

Homepage:
Spack package:
Versions:
develop, 0.0.7
Build Dependencies:
cmake
Description:
Tethex is designed to convert triangular (in 2D) or tetrahedral (in 3D) Gmsh's mesh to quadrilateral or hexahedral one respectively. These meshes can be used in software packages working with hexahedrals only - for example, deal.II.

texinfo

Homepage:
Spack package:
Versions:
6.5, 6.3, 6.0, 5.2, 5.1, 5.0
Build Dependencies:
gnuconfig, perl
Link Dependencies:
perl
Description:
Texinfo is the official documentation format of the GNU project. It was invented by Richard Stallman and Bob Chassell many years ago, loosely based on Brian Reid's Scribe and other formatting languages of the time. It is used by many non-GNU projects as well.

texlive

Homepage:
Spack package:
Versions:
20210325, 20200406, 20190410, live
Build Dependencies:
gnuconfig, perl, pkgconfig, cairo, freetype, ghostscript, gmp, harfbuzz, icu4c, libgd, libpaper, libpng, libxaw, libxt, mpfr, pixman, poppler, teckit, zlib, zziplib
Link Dependencies:
perl, cairo, freetype, ghostscript, gmp, harfbuzz, icu4c, libgd, libpaper, libpng, libxaw, libxt, mpfr, pixman, poppler, teckit, zlib, zziplib
Description:
TeX Live is an easy (we hope) way to get up and running with the TeX document production system. It provides a comprehensive TeX system with binaries for most flavors of Unix, including GNU/Linux, macOS, and also Windows. It includes all the major TeX-related programs, macro packages, and fonts that are free software, including support for many languages around the world.

texstudio

Homepage:
Spack package:
Versions:
master, 3.0.1, 3.0.0, 2.12.16, 2.12.14, 2.12.12, 2.12.10
Build Dependencies:
qt, poppler
Link Dependencies:
qt, poppler
Description:
TeXstudio is a fully featured LaTeX editor, whose goal is to make writing LaTeX documents as easy and comfortable as possible.

textparser

Homepage:
Spack package:
Versions:
master, 1.8.8
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Text Parser library allows us to describe and to parse JSON like simple parameter structure.

tfel

Homepage:
Spack package:
Versions:
master, 4.0.0, 3.4.3, 3.4.2, 3.4.1, 3.4.0, 3.3.3, 3.3.2, 3.3.1, 3.3.0, 3.2.6, 3.2.5, 3.2.4, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.10, 3.1.9, 3.1.8, 3.1.7, 3.1.6, 3.1.5, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.1.0, 3.0.10, 3.0.9, 3.0.8, 3.0.7, 3.0.6, 3.0.5, 3.0.4, 3.0.3, 3.0.2, 3.0.1, 3.0.0, 2.0.4, rliv-4.0, rliv-3.4, rliv-3.3, rliv-3.2, rliv-3.1, rliv-3.0, rliv-2.0, rliv-1.2
Build Dependencies:
cmake, java, python, py-numpy, boost
Link Dependencies:
java, python, py-numpy, boost
Run Dependencies:
python, py-numpy, boost
Description:
The TFEL project is a collaborative development of CEA (French Alternative Energies and Atomic Energy Commission) and EDF (Electricite de France). It mostly contains the MFront code generator which translates a set of closely related domain specific languages into plain C++ on top of the TFEL libraries. MFront handles material properties, mechanical behaviours and simple point-wise models. Interfaces are provided for several finite element solvers, such as: Abaqus/Standard, Abaqus/Explicit, Ansys APDL, Cast3M, Europlexus, Code_Aster, CalculiX and a few others. MFront comes with an handy easy-to-use tool called MTest that can test the local behaviour of a material, by imposing independent constraints on each component of the strain or the stress.

the-platinum-searcher

Homepage:
Spack package:
Versions:
head
Build Dependencies:
go
Description:
Fast parallel recursive grep alternative

the-silver-searcher

Homepage:
Spack package:
Versions:
2.2.0, 2.1.0, 0.32.0, 0.30.0
Build Dependencies:
gnuconfig, pcre, xz, zlib, pkgconfig
Link Dependencies:
pcre, xz, zlib
Description:
Fast recursive grep alternative

thepeg

Homepage:
Spack package:
Versions:
2.2.1, 2.2.0, 2.1.6, 2.1.5, 2.1.3, 2.1.1, 1.9.2, 1.9.0, 1.8.3
Build Dependencies:
gnuconfig, gsl, lhapdf, hepmc, hepmc3, fastjet, rivet, boost, autoconf, automake, libtool, m4, zlib
Link Dependencies:
gsl, lhapdf, hepmc, hepmc3, fastjet, rivet, boost, zlib
Description:
Toolkit for High Energy Physics Event Generation

thornado-mini

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi, hdf5, lapack
Link Dependencies:
mpi, hdf5, lapack
Description:
Code to solve the equation of radiative transfer in the multi-group two- moment approximation

thrift

Homepage:
Spack package:
Versions:
0.13.0, 0.12.0, 0.11.0, 0.10.0, 0.9.3
Build Dependencies:
pkgconfig, java, autoconf, automake, libtool, boost, bison, flex, openssl, python, py-setuptools, py-six, py-tornado, py-twisted, py-zope-interface, py-ipaddress, py-backports-ssl-match-hostname, py-pure-sasl, scons, zlib, libevent
Link Dependencies:
java, boost, openssl, zlib, libevent
Run Dependencies:
python, py-setuptools, py-six, py-tornado, py-twisted, py-zope-interface, py-ipaddress, py-backports-ssl-match-hostname, py-pure-sasl, scons
Description:
Software framework for scalable cross-language services development. Thrift combines a software stack with a code generation engine to build services that work efficiently and seamlessly between C++, Java, Python, PHP, Ruby, Erlang, Perl, Haskell, C#, Cocoa, JavaScript, Node.js, Smalltalk, OCaml and Delphi and other languages.

thrust

Homepage:
Spack package:
Versions:
1.16.0, 1.15.0, 1.14.0, 1.13.1, 1.13.0, 1.12.1, 1.12.0-rc0, 1.12.0, 1.11.0, 1.10.0, 1.9.10-1, 1.9.10, 1.9.9, 1.9.8-1, 1.9.8, 1.9.7-1, 1.9.7, 1.9.6-1, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.3, 1.8.2
Description:
Thrust is a parallel algorithms library which resembles the C++ Standard Template Library (STL).

tidy-html5

Homepage:
Spack package:
Versions:
5.7.28, 5.6.0
Build Dependencies:
cmake
Description:
Tidy is a console application for Mac OS X, Linux, Windows, UNIX, and more. It corrects and cleans up HTML and XML documents by fixing markup errors and upgrading legacy code to modern standards.

tig

Homepage:
Spack package:
Versions:
2.2.2
Build Dependencies:
gnuconfig, ncurses
Link Dependencies:
ncurses
Description:
Text-mode interface for git

time

Homepage:
Spack package:
Versions:
1.9
Build Dependencies:
gnuconfig
Description:
The time command runs another program, then displays information about the resources used by that program.

timedatex

Homepage:
Spack package:
Versions:
0.6, 0.5, 0.4
Build Dependencies:
glib
Link Dependencies:
glib
Description:
timedatex is a D-Bus service that implements the org.freedesktop.timedate1 interface. It can be used to read and set the system clock, the real-time clock (RTC), the system timezone, get a list of valid timezones, and enable or disable an NTP client installed on the system. It is a replacement for the systemd-timedated service.

timemory

Homepage:
Spack package:
Versions:
develop, master, 3.2.3, 3.2.2, 3.2.1, 3.2.0, 3.1.0, 3.0.1, 3.0.0
Build Dependencies:
python, py-pip, py-wheel, cmake, py-cython, mpi, nccl, tau, papi, cuda, upcxx, likwid, gotcha, caliper, dyninst, gperftools, intel-parallel-studio, arm-forge
Link Dependencies:
mpi, nccl, tau, papi, cuda, upcxx, likwid, gotcha, caliper, dyninst, gperftools, intel-parallel-studio, arm-forge
Run Dependencies:
python, pil, py-numpy, py-hatchet, py-matplotlib, py-mpi4py, py-pandas, py-pydot, py-pyyaml, py-multiprocess
Description:
Modular profiling toolkit and suite of libraries and tools for C/C++/Fortran/CUDA/Python

tini

Homepage:
Spack package:
Versions:
0.19.0
Build Dependencies:
cmake
Description:
A tiny but valid `init` for containers

tinker

Homepage:
Spack package:
Versions:
8.7.1
Build Dependencies:
cmake, fftw
Link Dependencies:
fftw
Description:
The Tinker molecular modeling software is a complete and general package for molecular mechanics and dynamics, with some special features for biopolymers.

tinygltf

Homepage:
Spack package:
Versions:
2.5.0
Build Dependencies:
cmake
Description:
Header only C++11 tiny glTF 2.0 library.

tinyobjloader

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
cmake
Description:
Tiny but powerful single file wavefront obj loader.

tinyxml

Homepage:
Spack package:
Versions:
2.6.2
Build Dependencies:
cmake
Description:
Simple, small, efficient, C++ XML parser

tinyxml2

Homepage:
Spack package:
Versions:
6.2.0, 4.0.1, 4.0.0, 3.0.0, 2.2.0, 2.1.0, 2.0.2
Build Dependencies:
cmake
Description:
Simple, small, efficient, C++ XML parser

tioga

Homepage:
Spack package:
Versions:
develop, master
Build Dependencies:
cuda, cmake, mpi
Link Dependencies:
cuda, mpi
Description:
Topology Independent Overset Grid Assembly (TIOGA)

tippecanoe

Homepage:
Spack package:
Versions:
1.34.3
Build Dependencies:
sqlite, zlib
Link Dependencies:
sqlite, zlib
Description:
Build vector tilesets from large collections of GeoJSON features.

tiptop

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gnuconfig, papi, byacc, flex
Link Dependencies:
papi
Description:
Tiptop is a performance monitoring tool for Linux.

tix

Homepage:
Spack package:
Versions:
8.4.3
Build Dependencies:
gnuconfig, tcl, tk
Link Dependencies:
tcl, tk
Run Dependencies:
tcl, tk
Description:
Tix, the Tk Interface eXtension, is a powerful set of user interface components that expands the capabilities of your Tcl/Tk and Python applications. Using Tix together with Tk will greatly enhance the appearance and functionality of your application.

tixi

Homepage:
Spack package:
Versions:
3.0.3, 2.2.4
Build Dependencies:
cmake, python, expat, curl, libxml2, libxslt
Link Dependencies:
expat, curl, libxml2, libxslt
Description:
TiXI is a fast and simple XML interface library and could be used from applications written in C, C++, Fortran, JAVA and Python.

tk

Homepage:
Spack package:
Versions:
8.6.11, 8.6.10, 8.6.8, 8.6.6, 8.6.5, 8.6.3, 8.5.19
Build Dependencies:
gnuconfig, tcl, libx11, libxft, libxscrnsaver
Link Dependencies:
tcl, libx11, libxft, libxscrnsaver
Run Dependencies:
tcl
Description:
Tk is a graphical user interface toolkit that takes developing desktop applications to a higher level than conventional approaches. Tk is the standard GUI not only for Tcl, but for many other dynamic languages, and can produce rich, native applications that run unchanged across Windows, Mac OS X, Linux and more.

tkrzw

Homepage:
Spack package:
Versions:
master, 0.9.44, 0.9.43, 0.9.42, 0.9.41, 0.9.40, 0.9.39, 0.9.38, 0.9.37, 0.9.36, 0.9.35, 0.9.34, 0.9.33, 0.9.32, 0.9.31, 0.9.30, 0.9.29, 0.9.28, 0.9.27, 0.9.26, 0.9.25, 0.9.24, 0.9.23, 0.9.22, 0.9.21, 0.9.20, 0.9.19, 0.9.18, 0.9.17, 0.9.16, 0.9.15, 0.9.14, 0.9.13, 0.9.12, 0.9.11, 0.9.10, 0.9.9, 0.9.8, 0.9.7, 0.9.6, 0.9.5, 0.9.4, 0.9.3, 0.9.2, 0.9.1
Build Dependencies:
gnuconfig, zlib, lz4, xz, zstd
Link Dependencies:
zlib, lz4, xz, zstd
Description:
Tkrzw is a C++ library implementing database managers with various algorithms.

tldd

Homepage:
Spack package:
Versions:
master, 2018-10-05
Build Dependencies:
pstreams
Link Dependencies:
pstreams
Description:
A program similar to ldd(1) but showing the output as a tree.

tmalign

Homepage:
Spack package:
Versions:
2016-05-25
Description:
TM-align is an algorithm for sequence-order independent protein structure comparisons.

tmhmm

Homepage:
Spack package:
Versions:
2.0c
Run Dependencies:
perl
Description:
Transmembrane helices in proteins Note: A manual download is required for TMHMM. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

tmux

Homepage:
Spack package:
Versions:
3.2a, 3.2, 3.1c, 3.1b, 3.1a, 3.1, 3.0a, 3.0, 2.9a, 2.9, 2.8, 2.7, 2.6, 2.5, 2.4, 2.3, 2.2, 2.1, 1.9a
Build Dependencies:
gnuconfig, pkgconfig, libevent, ncurses
Link Dependencies:
libevent, ncurses
Description:
Tmux is a terminal multiplexer. What is a terminal multiplexer? It lets you switch easily between several programs in one terminal, detach them (they keep running in the background) and reattach them to a different terminal. And do a lot more.

tomcat

Homepage:
Spack package:
Versions:
9.0.30, 9.0.29, 9.0.27, 9.0.26, 9.0.24
Description:
The Apache Tomcat software is an open source implementation of the Java Servlet, JavaServer Pages, Java Expression Language and Java WebSocket technologies.

toml11

Homepage:
Spack package:
Versions:
3.7.1, 3.7.0, 3.6.1, 3.6.0, 3.5.0, 3.4.0, 3.3.1, 3.3.0, 3.2.1, 3.2.0, 3.1.0
Build Dependencies:
cmake
Description:
toml11 is a C++11 (or later) header-only toml parser/encoder depending only on C++ standard library.

tophat

Homepage:
Spack package:
Versions:
2.1.2, 2.1.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, boost
Link Dependencies:
boost
Run Dependencies:
bowtie2
Description:
Spliced read mapper for RNA-Seq.

torque

Homepage:
Spack package:
Versions:
3.0.4, 3.0.2
Description:
TORQUE (Terascale Open-source Resource and QUEue Manager) is an open source project based on the original PBS resource manager developed by NASA, LLNL, and MRJ.

totalview

Homepage:
Spack package:
Versions:
2021.1.16, 2019.2.18
Description:
Totalview parallel debugger. Source must be made available to Spack externally, either by having the tarballs in the current working directory or having the tarballs in a Spack mirror. The documentation tarball will be used as the primary source and the architecture appropriate tarball will be downloaded as a resource.

tpm2-tss

Homepage:
Spack package:
Versions:
3.0.0, 2.4.2, 2.4.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, autoconf-archive, json-c, curl, doxygen, libgcrypt
Link Dependencies:
json-c, curl, libgcrypt
Description:
OSS implementation of the TCG TPM2 Software Stack (TSS2)

tppred

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
emboss
Link Dependencies:
emboss
Run Dependencies:
python, py-scikit-learn
Description:
TPPRED is a software package for the prediction of mitochondrial targeting peptides from protein primary sequence.

tracer

Homepage:
Spack package:
Versions:
develop, 2.2
Build Dependencies:
mpi, codes, otf2
Link Dependencies:
mpi, codes, otf2
Description:
Trace Replay and Network Simulation Framework

tracy

Homepage:
Spack package:
Versions:
master, 0.8.1
Build Dependencies:
capstone, dbus, freetype, glfw
Link Dependencies:
capstone, dbus, freetype, glfw
Description:
A real time, nanosecond resolution, remote telemetry, hybrid frame and sampling profiler for games and other applications. Server applications.

tracy-client

Homepage:
Spack package:
Versions:
master, 0.8.1
Build Dependencies:
cmake
Description:
A real time, nanosecond resolution, remote telemetry, hybrid frame and sampling profiler for games and other applications. Client library.

tramonto

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, trilinos
Link Dependencies:
trilinos
Description:
Tramonto: Software for Nanostructured Fluids in Materials and Biology

transabyss

Homepage:
Spack package:
Versions:
1.5.5
Build Dependencies:
abyss, python, py-python-igraph, blat
Link Dependencies:
abyss, blat
Run Dependencies:
python, py-python-igraph
Description:
De novo assembly of RNAseq data using ABySS

transdecoder

Homepage:
Spack package:
Versions:
5.5.0, 3.0.1
Build Dependencies:
perl
Run Dependencies:
perl, perl-uri
Description:
TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks.

transposome

Homepage:
Spack package:
Versions:
0.11.2
Build Dependencies:
perl, blast-plus
Link Dependencies:
blast-plus
Run Dependencies:
perl
Description:
A toolkit for annotation of transposable element families from unassembled sequence reads.

transrate

Homepage:
Spack package:
Versions:
1.0.3
Description:
Transrate is software for de-novo transcriptome assembly quality analysis.

transset

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
transset is an utility for setting opacity property.

trapproto

Homepage:
Spack package:
Versions:
3.4.3
Build Dependencies:
gnuconfig
Description:
X.org TrapProto protocol headers.

tree

Homepage:
Spack package:
Versions:
1.8.0, 1.7.0
Description:
Tree is a recursive directory listing command that produces a depth indented listing of files, which is colorized ala dircolors if the LS_COLORS environment variable is set and output is to tty. Tree has been ported and reported to work under the following operating systems: Linux, FreeBSD, OS X, Solaris, HP/UX, Cygwin, HP Nonstop and OS/2.

tree-sitter

Homepage:
Spack package:
Versions:
0.20.6, 0.20.4, 0.20.3, 0.20.2, 0.20.1
Description:
Tree-sitter is a parser generator tool and an incremental parsing library. It can build a concrete syntax tree for a source file and efficiently update the syntax tree as the source file is edited.

treelite

Homepage:
Spack package:
Versions:
0.93
Build Dependencies:
cmake, protobuf, python, py-pip, py-wheel, py-setuptools, py-numpy, py-scipy
Link Dependencies:
protobuf
Run Dependencies:
python, py-numpy, py-scipy
Description:
Treelite is a model compiler for efficient deployment of decision tree ensembles.

treesub

Homepage:
Spack package:
Versions:
0.2, 0.1
Build Dependencies:
java, ant
Run Dependencies:
java, paml, raxml, figtree
Description:
A small program (which glues together other programs) that allows a user to input a codon alignment in FASTA format and produce an annotated phylogenetic tree showing which substitutions occurred on a given branch. Originally written for colleagues at the MRC NIMR.

trf

Homepage:
Spack package:
Versions:
4.09.1, 4.09, 4.07b
Build Dependencies:
gnuconfig
Description:
Tandem Repeats Finder is a program to locate and display tandem repeats in DNA sequences. Note: A manual download is required for TRF. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

triangle

Homepage:
Spack package:
Versions:
1.6
Link Dependencies:
libx11
Description:
Triangle is a two-dimensional mesh generator and Delaunay triangulator. Triangle generates exact Delaunay triangulations, constrained Delaunay triangulations, conforming Delaunay triangulations, Voronoi diagrams, and high-quality triangular meshes.

trident

Homepage:
Spack package:
Versions:
20.01.1, 20.01.0
Build Dependencies:
go
Description:
Trident is a fully supported open source project maintained by NetApp. It has been designed from the ground up to help you meet the sophisticated persistence demands of your containerized applications.

trilinos

Homepage:
Spack package:
Versions:
develop, master, 13.2.0, 13.0.1, 13.0.0, 12.18.1, 12.14.1, 12.12.1, 12.10.1, 12.8.1, 12.6.4, 12.6.3, 12.6.2, 12.6.1, 12.4.2, 12.2.1, 12.0.1, 11.14.3, 11.14.2, 11.14.1
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, adios2, blas, boost, cgns, hdf5, hypre, kokkos-nvcc-wrapper, lapack, libx11, matio, metis, mpi, netcdf-c, parallel-netcdf, parmetis, py-mpi4py, py-numpy, python, scalapack, strumpack, suite-sparse, superlu-dist, superlu, swig, zlib, mumps, hwloc
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, adios2, blas, boost, cgns, hdf5, hypre, kokkos-nvcc-wrapper, lapack, libx11, matio, metis, mpi, netcdf-c, parallel-netcdf, parmetis, python, scalapack, strumpack, suite-sparse, superlu-dist, superlu, swig, zlib, mumps, hwloc
Run Dependencies:
py-mpi4py, py-numpy
Description:
The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. A unique design feature of Trilinos is its focus on packages.

trilinos-catalyst-ioss-adapter

Homepage:
Spack package:
Versions:
develop, master
Build Dependencies:
cmake, bison, flex, paraview, py-numpy, netcdf-c
Link Dependencies:
paraview, netcdf-c
Run Dependencies:
py-numpy
Description:
Adapter for Trilinos Seacas Ioss and Paraview Catalyst

trimal

Homepage:
Spack package:
Versions:
1.4.1
Description:
A tool for automated alignment trimming in large-scale phylogenetic analyses

trimgalore

Homepage:
Spack package:
Versions:
0.6.6, 0.6.4, 0.6.3, 0.6.2, 0.6.1, 0.6.0, 0.4.5, 0.4.4
Build Dependencies:
perl, py-cutadapt, fastqc
Link Dependencies:
fastqc
Run Dependencies:
perl, py-cutadapt
Description:
Trim Galore! is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data.

trimmomatic

Homepage:
Spack package:
Versions:
0.39, 0.38, 0.36, 0.33
Run Dependencies:
java
Description:
A flexible read trimming tool for Illumina NGS data.

trinity

Homepage:
Spack package:
Versions:
2.14.0.FULL, 2.12.0.FULL, 2.6.6
Build Dependencies:
cmake, java, bowtie2, jellyfish, salmon, perl, autoconf, automake, libtool
Link Dependencies:
bowtie2, jellyfish, salmon
Run Dependencies:
java, perl, r-dexseq, star, picard, subread, gatk, gmap-gsnap, r-tximport, r-tximportdata, blast-plus, bowtie, r, r-tidyverse, r-edger, r-deseq2, r-ape, r-gplots, r-biobase, r-qvalue, rsem, kallisto, fastqc, samtools, py-numpy, express, perl-db-file, perl-uri, r-fastcluster, r-ctc, r-goseq, r-glimma, r-rots, r-goplot, r-argparse, r-sm
Description:
Trinity, developed at the Broad Institute and the Hebrew University of Jerusalem, represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes.

trinotate

Homepage:
Spack package:
Versions:
3.2.2, 3.1.1
Run Dependencies:
trinity, transdecoder, sqlite, ncbi-rmblastn, hmmer, perl, lighttpd, perl-dbi, perl-cgi, perl-dbd-sqlite
Description:
Trinotate is a comprehensive annotation suite designed for automatic functional annotation of transcriptomes, particularly de novo assembled transcriptomes, from model or non-model organisms

trnascan-se

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
gnuconfig
Run Dependencies:
infernal
Description:
Seaching for tRNA genes in genomic sequence

truchas

Homepage:
Spack package:
Versions:
develop, 22.04.1
Build Dependencies:
cmake, python, py-numpy, py-h5py, exodusii, scorpio, petaca, chaco, metis, chaparral, hypre, portage
Link Dependencies:
python, py-numpy, py-h5py, exodusii, scorpio, petaca, chaco, metis, chaparral, hypre, portage
Description:
Physics-based modeling and simulation of manufacturing processes. Truchas includes coupled physics models for incompressible multi- material flow with interface tracking, heat transfer, phase change, view factor thermal radiation, species advection-diffusion, elastic/plastic mechanics with contact, and electromagnetics. It employs finite volume, finite element, and mimetic finite difference discretizations on 3-D unstructured meshes composed of mixed cell types.

tskit

Homepage:
Spack package:
Versions:
0.3.1
Build Dependencies:
python, py-pip, py-wheel, py-setuptools, py-svgwrite, py-jsonschema, py-h5py, py-numpy, py-attrs
Run Dependencies:
python, py-setuptools, py-svgwrite, py-jsonschema, py-h5py, py-numpy, py-attrs
Description:
The tskit library provides the underlying functionality used to load, examine, and manipulate tree sequences

tulip

Homepage:
Spack package:
Versions:
5.4.0
Build Dependencies:
cmake, python, py-pyqt5, yajl, qt, qhull, freetype, zlib, glew, jpeg, libpng, libxml2
Link Dependencies:
yajl, qt, qhull, freetype, zlib, glew, jpeg, libpng, libxml2
Run Dependencies:
python, py-pyqt5
Description:
Tulip is an information visualization framework dedicated to the analysis and visualization of relational data. Tulip aims to provide the developer with a complete library, supporting the design of interactive information visualization applications for relational data that can be tailored to the problems he or she is addressing.

turbine

Homepage:
Spack package:
Versions:
master, 1.3.0, 1.2.3
Build Dependencies:
gnuconfig, adlbx, tcl, zsh, swig, python, r, r-rinside, hdf5, mpi, autoconf, automake, libtool, m4
Link Dependencies:
adlbx, python, r, r-rinside, hdf5, mpi
Run Dependencies:
tcl, zsh, m4
Description:
Turbine: The Swift/T runtime

turbomole

Homepage:
Spack package:
Versions:
7.0.2
Description:
TURBOMOLE: Program Package for ab initio Electronic Structure Calculations. Note: Turbomole requires purchase of a license to download. Go to the Turbomole home page, http://www.turbomole-gmbh.com, for details. Spack will search the current directory for this file. It is probably best to add this file to a Spack mirror so that it can be found from anywhere. For information on setting up a Spack mirror see https://spack.readthedocs.io/en/latest/mirrors.html

turnserver

Homepage:
Spack package:
Versions:
4.5.1.3
Build Dependencies:
gnuconfig, libevent
Link Dependencies:
libevent
Description:
coturn TURN server project.

tut

Homepage:
Spack package:
Versions:
2016-12-19
Build Dependencies:
python
Description:
TUT is a small and portable unit test framework for C++.

twm

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, libx11, libxext, libxt, libxmu, libice, libsm, xproto, bison, flex, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxt, libxmu, libice, libsm, xproto
Description:
twm is a window manager for the X Window System. It provides titlebars, shaped windows, several forms of icon management, user-defined macro functions, click-to-type and pointer-driven keyboard focus, and user- specified key and pointer button bindings.

tycho2

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
A neutral particle transport mini-app to study performance of sweeps on unstructured, 3D tetrahedral meshes.

typhon

Homepage:
Spack package:
Versions:
develop, 3.0.2, 3.0.1, 3.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Typhon is a distributed communications library for unstructured mesh applications.

typhonio

Homepage:
Spack package:
Versions:
develop, 1.6_CMake
Build Dependencies:
cmake, mpi, hdf5
Link Dependencies:
mpi, hdf5
Description:
TyphonIO is a library of routines that perform input/output (I/O) of scientific data within application codes

uchardet

Homepage:
Spack package:
Versions:
master, 0.0.7, 0.0.6, 0.0.5, 0.0.4, 0.0.3, 0.0.2
Build Dependencies:
cmake
Description:
uchardet is an encoding detector library, which takes a sequence of bytes in an unknown character encoding without any additional information, and attempts to determine the encoding of the text. Returned encoding names are iconv-compatible.

ucx

Homepage:
Spack package:
Versions:
1.12.1, 1.12.0, 1.11.2, 1.11.1, 1.11.0, 1.10.1, 1.10.0, 1.9.0, 1.9-dev, 1.8.1, 1.8.0, 1.7.0, 1.6.1, 1.6.0, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0
Build Dependencies:
cuda, gnuconfig, binutils, gdrcopy, java, knem, libfuse, maven, numactl, pkgconfig, rdma-core, xpmem
Link Dependencies:
cuda, binutils, gdrcopy, java, knem, libfuse, maven, numactl, rdma-core, xpmem
Description:
a communication library implementing high-performance messaging for MPI/PGAS frameworks

udunits

Homepage:
Spack package:
Versions:
2.2.28, 2.2.24, 2.2.23, 2.2.21
Build Dependencies:
gnuconfig, expat
Link Dependencies:
expat
Description:
Automated units conversion

ufo-core

Homepage:
Spack package:
Versions:
0.14.0
Build Dependencies:
cmake, glib, json-glib
Link Dependencies:
glib, json-glib
Description:
The UFO data processing framework is a C library suited to build general purpose streams data processing on heterogeneous architectures such as CPUs, GPUs or clusters. This package contains the run-time system and development files.

ufo-filters

Homepage:
Spack package:
Versions:
0.14.1
Build Dependencies:
cmake, ufo-core
Link Dependencies:
ufo-core
Description:
The UFO data processing framework is a C library suited to build general purpose streams data processing on heterogeneous architectures such as CPUs, GPUs or clusters. This package contains filter plugins.

ufs-utils

Homepage:
Spack package:
Versions:
1_6_0
Build Dependencies:
cmake, bacio, esmf, g2, hdf5, ip, jasper, libpng, nemsio, netcdf-c, netcdf-fortran, sfcio, sigio, sp, w3nco, wgrib2, zlib
Link Dependencies:
bacio, esmf, g2, hdf5, ip, jasper, libpng, nemsio, netcdf-c, netcdf-fortran, sfcio, sigio, sp, w3nco, wgrib2, zlib
Description:
The UFS Utilities package contains programs set up the model grid and create coldstart initial conditions. This is related to NOAA's NCEPLIBS project.

ufs-weather-model

Homepage:
Spack package:
Versions:
2.0.0, 1.1.0
Build Dependencies:
cmake, bacio, esmf, mpi, nemsio, netcdf-c, netcdf-fortran, sp, w3emc, w3nco
Link Dependencies:
bacio, esmf, mpi, nemsio, netcdf-c, netcdf-fortran, sp, w3emc, w3nco
Description:
The Unified Forecast System (UFS) Weather Model (WM) is a prognostic model that can be used for short- and medium-range research and operational forecasts, as exemplified by its use in the operational Global Forecast System (GFS) of the National Oceanic and Atmospheric Administration (NOAA).

uftrace

Homepage:
Spack package:
Versions:
master, 0.11, 0.10
Build Dependencies:
gnuconfig, pandoc, capstone, elfutils, pkgconfig, libunwind, ncurses, python, lua-luajit
Link Dependencies:
capstone, elfutils, libunwind, ncurses, python, lua-luajit
Test Dependencies:
lsof
Description:
Dynamic function graph tracer for Linux which demangles C, C++ and Rust calls

umap

Homepage:
Spack package:
Versions:
develop, 2.1.0, 2.0.0, 1.0.0, 0.0.4, 0.0.3, 0.0.2, 0.0.1
Build Dependencies:
cmake
Description:
Umap is a library that provides an mmap()-like interface to a simple, user-space page fault handler based on the userfaultfd Linux feature (starting with 4.3 linux kernel).

umesimd

Homepage:
Spack package:
Versions:
0.8.1, 0.7.1, 0.6.1, 0.5.2, 0.5.1, 0.4.2, 0.4.1, 0.3.2, 0.3.1
Build Dependencies:
cmake
Description:
UME::SIMD is an explicit vectorization library. The library defines homogeneous interface for accessing functionality of SIMD registers of AVX, AVX2, AVX512 and IMCI (KNCNI, k1om) instruction set.

umoci

Homepage:
Spack package:
Versions:
0.4.4, 0.4.3, 0.4.2, 0.4.1, 0.4.0
Build Dependencies:
go, go-md2man
Link Dependencies:
go
Description:
umoci modifies Open Container images, intending to be a complete manipulation tool for OCI images.

umpire

Homepage:
Spack package:
Versions:
develop, main, 2022.03.1, 2022.03.0, 6.0.0, 5.0.1, 5.0.0, 4.1.2, 4.1.1, 4.1.0, 4.0.1, 4.0.0, 3.0.0, 2.1.0, 2.0.0, 1.1.0, 1.0.1, 1.0.0, 0.3.5, 0.3.4, 0.3.3, 0.3.2, 0.3.1, 0.3.0, 0.2.4, 0.2.3, 0.2.2, 0.2.1, 0.2.0, 0.1.4, 0.1.3
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, blt, camp
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, camp
Description:
An application-focused API for memory management on NUMA & GPU architectures

unblur

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
gnuconfig, zlib, jpeg, libtiff, gsl, jbigkit, fftw
Link Dependencies:
zlib, jpeg, libtiff, gsl, jbigkit, fftw
Description:
Unblur is used to align the frames of movies recorded on an electron microscope to reduce image blurring due to beam-induced motion.

uncrustify

Homepage:
Spack package:
Versions:
master, 0.74, 0.73, 0.72, 0.71, 0.70, 0.69, 0.68, 0.67, 0.66, 0.65, 0.64, 0.63, 0.62, 0.61
Build Dependencies:
cmake, automake, autoconf
Description:
Source Code Beautifier for C, C++, C#, ObjectiveC, Java, and others.

unibilium

Homepage:
Spack package:
Versions:
2.0.0, 1.2.0
Build Dependencies:
libtool
Description:
A terminfo parsing library

unifdef

Homepage:
Spack package:
Versions:
2.11
Description:
The unifdef utility selectively processes conditional C preprocessor #if and #ifdef directives. It removes from a file both the directives and the additional text that they delimit, while otherwise leaving the file alone.

unifyfs

Homepage:
Spack package:
Versions:
develop, 0.9.2, 0.9.1
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, gotcha, mercury, mochi-margo, mpi, openssl, libfabric, spath
Link Dependencies:
gotcha, mercury, mochi-margo, mpi, openssl, libfabric, spath
Description:
User level file system that enables applications to use node-local storage as burst buffers for shared files. Supports scalable and efficient aggregation of I/O bandwidth from burst buffers while having the same life cycle as a batch-submitted job. UnifyFS is designed to support common I/O workloads, including checkpoint/restart. While primarily designed for N-N write/read, UnifyFS compliments its functionality with the support for N-1 write/read.

unigen

Homepage:
Spack package:
Versions:
2.3
Build Dependencies:
root
Link Dependencies:
root
Description:
The United Generators project was launched by the Virtual Institute 146 VI-SIM in September 2005 following a proposal of Herbert Strobele. The goal was to facilitate comparison between various models (see below) and/or various experiments (HADES, FOPI, CERES, NA49, CBM). The package at present allows to convert output of various event generators to a generic root format.

unison

Homepage:
Spack package:
Versions:
2.51.2, 2.48.15v4
Build Dependencies:
ocaml
Description:
Unison is a file-synchronization tool for OSX, Unix, and Windows. It allows two replicas of a collection of files and directories to be stored on different hosts (or different disks on the same host), modified separately, and then brought up to date by propagating the changes in each replica to the other.

units

Homepage:
Spack package:
Versions:
2.13
Build Dependencies:
gnuconfig, python
Run Dependencies:
python
Description:
GNU units converts between different systems of units

unittest-cpp

Homepage:
Spack package:
Versions:
2.0.0, 1.6.0
Build Dependencies:
cmake
Description:
UnitTest++ is a lightweight unit testing framework for C++. It was designed to do test-driven development on a wide variety of platforms. Simplicity, portability, speed, and small footprint are all very important aspects of UnitTest++. UnitTest++ is mostly standard C++ and makes minimal use of advanced library and language features, which means it should be easily portable to just about any platform.

universal-ctags

Homepage:
Spack package:
Versions:
master, 5.9.20210912.0, 5.9.20210808.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig
Link Dependencies:
libiconv
Description:
Universal Ctags generates an index (or tag) file of language objects found in source files for many popular programming languages. This index makes it easy for text editors and other tools to locate the indexed items.

unixodbc

Homepage:
Spack package:
Versions:
2.3.4
Build Dependencies:
gnuconfig, iconv, libtool
Link Dependencies:
iconv, libtool
Description:
ODBC is an open specification for providing application developers with a predictable API with which to access Data Sources. Data Sources include SQL Servers and any Data Source with an ODBC Driver.

unqlite

Homepage:
Spack package:
Versions:
master, 1.1.9
Build Dependencies:
cmake
Description:
UnQLite is a in-process software library which implements a self- contained, serverless, zero-configuration, transactional NoSQL database engine.

unrar

Homepage:
Spack package:
Versions:
5.9.4, 5.8.2, 5.8.1
Description:
RAR archive extraction utility

unuran

Homepage:
Spack package:
Versions:
1.8.1
Build Dependencies:
gnuconfig, gsl, rngstreams
Link Dependencies:
gsl, rngstreams
Description:
Universal Non-Uniform Random number generator.

unzip

Homepage:
Spack package:
Versions:
6.0
Description:
Unzip is a compression and file packaging/archive utility.

upcxx

Homepage:
Spack package:
Versions:
develop, master, 2022.3.0, 2021.9.0, 2021.3.0, 2020.11.0, 2020.10.0, 2020.3.2, 2020.3.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gasnet, mpi, python
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gasnet, mpi
Run Dependencies:
python
Description:
UPC++ is a C++ library that supports Partitioned Global Address Space (PGAS) programming, and is designed to interoperate smoothly and efficiently with MPI, OpenMP, CUDA, ROCm/HIP and AMTs. It leverages GASNet-EX to deliver low-overhead, fine-grained communication, including Remote Memory Access (RMA) and Remote Procedure Call (RPC).

upp

Homepage:
Spack package:
Versions:
10.0.10, 10.0.9
Build Dependencies:
cmake, mpi, netcdf-fortran, bacio, crtm, g2, g2tmpl, ip, nemsio, sfcio, sigio, sp, w3nco, wrf-io, doxygen
Link Dependencies:
mpi, netcdf-fortran, bacio, crtm, g2, g2tmpl, ip, nemsio, sfcio, sigio, sp, w3nco, wrf-io, doxygen
Description:
The Unified Post Processor (UPP) software package is a software package designed to generate useful products from raw model output.

uqtk

Homepage:
Spack package:
Versions:
master, 3.1.0, 3.0.4
Build Dependencies:
cmake, expat, sundials, blas, lapack, python, py-numpy, py-scipy, py-matplotlib, py-pymc3, swig
Link Dependencies:
expat, sundials, blas, lapack, py-numpy, py-scipy, py-matplotlib, py-pymc3, swig
Run Dependencies:
python
Description:
Sandia Uncertainty Quantification Toolkit. The UQ Toolkit (UQTk) is a collection of libraries and tools for the quantification of uncertainty in numerical model predictions

uriparser

Homepage:
Spack package:
Versions:
0.9.6, 0.9.5, 0.9.3
Build Dependencies:
cmake, doxygen, graphviz
Link Dependencies:
googletest
Description:
uriparser is a strictly RFC 3986 compliant URI parsing and handling library written in C89 ("ANSI C").

usbutils

Homepage:
Spack package:
Versions:
012, 011, 010
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libusb
Link Dependencies:
libusb
Description:
This is a collection of USB tools for use on Linux and BSD systems to query what type of USB devices are connected to the system.

usearch

Homepage:
Spack package:
Versions:
11.0.667, 10.0.240
Description:
USEARCH is a unique sequence analysis tool with thousands of users world-wide. Note: A manual download is required for USEARCH. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

userspace-rcu

Homepage:
Spack package:
Versions:
0.13.1, 0.13.0, 0.12.3, 0.12.2, 0.12.1, 0.12.0, 0.11.4, 0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.2, 0.9.6
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
liburcu is a LGPLv2.1 userspace RCU (read-copy-update) library. This data synchronization library provides read-side access which scales linearly with the number of cores.

utf8cpp

Homepage:
Spack package:
Versions:
2.3.4
Description:
A simple, portable and lightweight generic library for handling UTF-8 encoded strings.

utf8proc

Homepage:
Spack package:
Versions:
2.6.1, 2.6.0, 2.5.0, 2.4.0
Build Dependencies:
cmake
Description:
A clean C library for processing UTF-8 Unicode data: normalization, case-folding, graphemes, and more

util-linux

Homepage:
Spack package:
Versions:
2.38, 2.37.4, 2.37.2, 2.37.1, 2.37, 2.36.2, 2.36, 2.35.1, 2.35, 2.34, 2.33.1, 2.33, 2.29.2, 2.29.1, 2.25
Build Dependencies:
gnuconfig, python, pkgconfig
Link Dependencies:
ncurses
Run Dependencies:
bash
Description:
Util-linux is a suite of essential utilities for any Linux system.

util-linux-uuid

Homepage:
Spack package:
Versions:
2.37.4, 2.36.2, 2.36
Build Dependencies:
gnuconfig, pkgconfig
Description:
Util-linux is a suite of essential utilities for any Linux system.

util-macros

Homepage:
Spack package:
Versions:
1.19.3, 1.19.2, 1.19.1, 1.19.0
Build Dependencies:
gnuconfig
Description:
This is a set of autoconf macros used by the configure.ac scripts in other Xorg modular packages, and is needed to generate new versions of their configure scripts with autoconf.

uvw

Homepage:
Spack package:
Versions:
1.14.0, 1.13.0, 1.12.0
Build Dependencies:
cmake, doxygen
Link Dependencies:
libuv
Description:
uvw is a header-only, event based, tiny and easy to use libuv wrapper in modern C++.

vacuumms

Homepage:
Spack package:
Versions:
master, 1.1.1, 1.0.0
Build Dependencies:
cmake
Link Dependencies:
libtiff, cuda, libx11, libxext, libsm, libice
Run Dependencies:
libtiff, cuda, libx11, libxext, libsm, libice
Description:
VACUUMMS: (Void Analysis Codes and Unix Utilities for Molecular Modeling and Simulation) is a collection of research codes for the compuational analysis of free volume in molecular structures, including the generation of code for the production of high quality ray-traced images and videos. Note that production of the images from the generated code is considered post-processing and requires POVRay and feh (on X11 systems) as post-processing dependencies. VACUUMMS has been tested under Linux on x86_64 and ARM64. Please submit questions, pull requests, and bug reports via github. https://dl.acm.org/doi/abs/10.1145/2335755.2335826

valgrind

Homepage:
Spack package:
Versions:
develop, 3.18.1, 3.18.0, 3.17.0, 3.16.1, 3.15.0, 3.14.0, 3.13.0, 3.12.0, 3.11.0, 3.10.1, 3.10.0
Build Dependencies:
gnuconfig, mpi, boost, autoconf, automake, libtool
Link Dependencies:
mpi, boost
Description:
An instrumentation framework for building dynamic analysis. There are Valgrind tools that can automatically detect many memory management and threading bugs, and profile your programs in detail. You can also use Valgrind to build new tools. Valgrind is Open Source / Free Software, and is freely available under the GNU General Public License, version 2.

vampirtrace

Homepage:
Spack package:
Versions:
5.14.4
Build Dependencies:
gnuconfig, mpi, otf, papi, zlib
Link Dependencies:
mpi, otf, papi, zlib
Description:
VampirTrace is an open source library that allows detailed logging of program execution for parallel applications using message passing (MPI) and threads (OpenMP, Pthreads).

vapor

Homepage:
Spack package:
Versions:
3.5.0, 3.3.0
Build Dependencies:
cmake, glu, qt, netcdf-c, udunits, freetype, libgeotiff, hdf5, jpeg, glew, assimp, libtiff, proj, glm, python, py-numpy
Link Dependencies:
glu, qt, netcdf-c, udunits, freetype, libgeotiff, hdf5, jpeg, glew, assimp, libtiff, proj, glm, python, py-numpy
Description:
VAPOR is the Visualization and Analysis Platform for Ocean, Atmosphere, and Solar Researchers. VAPOR provides an interactive 3D visualization environment that can also produce animations and still frame images.

vardictjava

Homepage:
Spack package:
Versions:
1.5.1
Run Dependencies:
java
Description:
VarDictJava is a variant discovery program written in Java. It is a partial Java port of VarDict variant caller.

variorum

Homepage:
Spack package:
Versions:
0.4.1, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cmake, hwloc, py-sphinx
Link Dependencies:
hwloc, jansson
Description:
Variorum is a library providing vendor-neutral interfaces for monitoring and controlling underlying hardware features.

varnish-cache

Homepage:
Spack package:
Versions:
6.4.0, 6.3.2, 6.3.1, 6.3.0, 6.2.3
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pcre, readline, python, py-sphinx, py-docutils
Link Dependencies:
pcre, readline
Run Dependencies:
python, py-sphinx, py-docutils
Description:
This is Varnish Cache, the high-performance HTTP accelerator.

varscan

Homepage:
Spack package:
Versions:
2.4.2
Build Dependencies:
java
Run Dependencies:
java
Description:
Variant calling and somatic mutation/CNV detection for next-generation sequencing data

vasp

Homepage:
Spack package:
Versions:
6.2.0, 6.1.1, 5.4.4.pl2, 5.4.4
Build Dependencies:
rsync, blas, lapack, fftw-api, mpi, scalapack, cuda, qd
Link Dependencies:
blas, lapack, fftw-api, mpi, scalapack, cuda, qd
Run Dependencies:
mpi
Description:
The Vienna Ab initio Simulation Package (VASP) is a computer program for atomic scale materials modelling, e.g. electronic structure calculations and quantum-mechanical molecular dynamics, from first principles.

vbfnlo

Homepage:
Spack package:
Versions:
3.0.0beta5, 3.0.0beta4, 3.0.0beta2, 3.0.0beta1, 2.7.1
Build Dependencies:
gnuconfig, hepmc, gsl, lhapdf, looptools, automake, autoconf, m4, libtool
Link Dependencies:
hepmc, gsl, lhapdf, looptools
Description:
VBFNLO is a fully flexible parton level Monte Carlo program for the simulation of vector boson fusion, double and triple vector boson production in hadronic collisions at next to leading order in the strong coupling constant.

vc

Homepage:
Spack package:
Versions:
1.4.2, 1.4.1, 1.3.0, 1.2.0, 1.1.0
Build Dependencies:
cmake, virtest
Link Dependencies:
virtest
Description:
SIMD Vector Classes for C++

vcftools

Homepage:
Spack package:
Versions:
0.1.14
Build Dependencies:
gnuconfig, perl, zlib
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
VCFtools is a program package designed for working with VCF files, such as those generated by the 1000 Genomes Project. The aim of VCFtools is to provide easily accessible methods for working with complex genetic variation data in the form of VCF files.

vcsh

Homepage:
Spack package:
Versions:
1.20151229-1, 1.20151229, 1.20150502, 1.20141026, 1.20141025
Run Dependencies:
git
Description:
config manager based on git

vdt

Homepage:
Spack package:
Versions:
0.4.3, 0.3.9, 0.3.8, 0.3.7, 0.3.6
Build Dependencies:
cmake
Description:
Vectorised math. A collection of fast and inline implementations of mathematical functions.

veccore

Homepage:
Spack package:
Versions:
master, 0.8.0, 0.7.0, 0.6.0, 0.5.2, 0.5.1, 0.5.0, 0.4.2, 0.4.1, 0.4.0, 0.3.2
Build Dependencies:
cmake
Description:
SIMD Vectorization Library for VecGeom and GeantV. VecCore is a header- only (interface) library so no cmake arguments are necessary.

vecgeom

Homepage:
Spack package:
Versions:
master, 1.2.0, 1.1.20, 1.1.19, 1.1.18, 1.1.17, 1.1.16, 1.1.15, 1.1.13, 1.1.12, 1.1.9, 1.1.8, 1.1.7, 1.1.6, 1.1.5, 1.1.3, 1.1.0, 1.0.1, 0.5.2, 0.3.rc
Build Dependencies:
cuda, cmake, veccore, geant4, root, xerces-c
Link Dependencies:
cuda, veccore, geant4, root, xerces-c
Description:
The vectorized geometry library for particle-detector simulation (toolkits).

veclibfort

Homepage:
Spack package:
Versions:
develop, 0.4.2
Description:
Lightweight but flexible shim designed to rectify the incompatibilities between the Accelerate/vecLib BLAS and LAPACK libraries shipped with macOS and FORTRAN code compiled with modern compilers such as GNU Fortran.

vecmem

Homepage:
Spack package:
Versions:
0.12.0, 0.11.0, 0.10.0, 0.9.0, 0.8.0, 0.7.0, 0.6.0, 0.5.0, 0.4.0, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cuda, cmake, hip, sycl
Link Dependencies:
cuda, hip, sycl
Description:
VecMem is a vectorised data model base and helper classes.

vectorclass-version2

Homepage:
Spack package:
Versions:
2.01.04
Description:
This is a C++ class library for using the Single Instruction Multiple Data (SIMD) instructions to improve performance on modern microprocessors with the x86 or x86/64 instruction set on Windows, Linux, and Mac platforms.

vegas2

Homepage:
Spack package:
Versions:
2
Build Dependencies:
plink
Link Dependencies:
plink
Run Dependencies:
perl, r, r-mvtnorm, r-corpcor
Description:
"VEGAS2 is an extension that uses 1,000 Genomes data to model SNP correlations across the autosomes and chromosome X

veloc

Homepage:
Spack package:
Versions:
master, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Build Dependencies:
cmake, boost, libpthread-stubs, mpi, er, axl, openssl, pdsh
Link Dependencies:
boost, libpthread-stubs, mpi, er, axl, openssl, pdsh
Description:
Very-Low Overhead Checkpointing System. VELOC is a multi-level checkpoint-restart runtime for HPC supercomputing infrastructures

velvet

Homepage:
Spack package:
Versions:
1.2.10
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Velvet is a de novo genomic assembler specially designed for short read sequencing technologies.

velvetoptimiser

Homepage:
Spack package:
Versions:
2.2.6
Run Dependencies:
velvet, perl, perl-bioperl
Description:
Automatically optimise three of Velvet's assembly parameters.

verilator

Homepage:
Spack package:
Versions:
4.108, 4.020, 3.920, 3.904
Build Dependencies:
gnuconfig, bison, flex, perl
Link Dependencies:
flex
Run Dependencies:
perl
Description:
Verilator is the fastest free Verilog HDL simulator. It compiles synthesizable Verilog (not test-bench code!), plus some PSL, SystemVerilog and Synthesis assertions into C++ or SystemC code. It is designed for large projects where fast simulation performance is of primary concern, and is especially well suited to generate executable models of CPUs for embedded software design teams. Please do not download this program if you are expecting a full featured replacement for NC-Verilog, VCS or another commercial Verilog simulator or Verilog compiler for a little project! (Try Icarus instead.) However, if you are looking for a path to migrate synthesizable Verilog to C++ or SystemC, and writing just a touch of C code and Makefiles doesn't scare you off, this is the free Verilog compiler for you. Verilator supports the synthesis subset of Verilog, plus initial statements, proper blocking/non-blocking assignments, functions, tasks, multi-dimensional arrays, and signed numbers. It also supports very simple forms of SystemVerilog assertions and coverage analysis. Verilator supports the more important Verilog 2005 constructs, and some SystemVerilog features, with additional constructs being added as users request them. Verilator has been used to simulate many very large multi-million gate designs with thousands of modules.

verrou

Homepage:
Spack package:
Versions:
develop, 2.2.0, 2.1.0, 2.0.0, 1.1.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, python
Run Dependencies:
python
Description:
A floating-point error checker. Verrou helps you look for floating-point round-off errors in programs. It implements a stochastic floating-point arithmetic based on random rounding: all floating-point operations are perturbed by randomly switching rounding modes. This can be seen as an asynchronous variant of the CESTAC method, or a subset of Monte Carlo Arithmetic, performing only output randomization through random rounding.

vesta

Homepage:
Spack package:
Versions:
3.4.6
Build Dependencies:
gtkplus, mesa, cairo
Link Dependencies:
gtkplus, mesa, cairo
Description:
VESTA is a 3D visualization program for structural models, volumetric data such as electron/nuclear densities, and crystal morphologies.

vgm

Homepage:
Spack package:
Versions:
master, 4-8, 4-7, 4-6, 4-5, 4-4, 4-3, 4-2, 4-01, 4-00, 3-06
Build Dependencies:
cmake, clhep, root, geant4
Link Dependencies:
clhep, root, geant4
Description:
Virtual Geometry Model (VGM) is a geometry conversion tool, actually providing conversion between Geant4 and ROOT TGeo geometry models.

videoproto

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Video Extension. This extension provides a protocol for a video output mechanism, mainly to rescale video playback in the video controller hardware.

viennarna

Homepage:
Spack package:
Versions:
2.5.0, 2.4.3, 2.3.5
Build Dependencies:
gnuconfig, perl, python, libsvm, gsl
Link Dependencies:
libsvm, gsl
Run Dependencies:
perl, python
Description:
The ViennaRNA Package consists of a C code library and several stand- alone programs for the prediction and comparison of RNA secondary structures.

viewres

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt
Description:
viewres displays a tree showing the widget class hierarchy of the Athena Widget Set (libXaw).

vifi

Homepage:
Spack package:
Versions:
master
Run Dependencies:
perl, python, py-pysam, hmmer
Description:
ViFi is a collection of python and perl scripts for identifying viral integration and fusion mRNA reads from NGS data.

vigra

Homepage:
Spack package:
Versions:
master, 1.11.1
Build Dependencies:
cmake, libtiff, libpng, jpeg, hdf5, fftw, openexr, py-numpy, boost, py-sphinx, doxygen, python, py-nose
Link Dependencies:
libtiff, libpng, jpeg, hdf5, fftw, openexr, boost
Run Dependencies:
py-numpy, python
Test Dependencies:
py-nose
Description:
VIGRA stands for "Vision with Generic Algorithms". It's an image processing and analysis library that puts its main emphasis on customizable algorithms and data structures

vim

Homepage:
Spack package:
Versions:
8.2.2541, 8.2.1201, 8.2.0752, 8.1.2141, 8.1.0338, 8.1.0001, 8.0.1376, 8.0.0503, 8.0.0454, 8.0.0134, 7.4.2367
Build Dependencies:
gnuconfig, findutils, ncurses, lua, perl, python, ruby, fontconfig, libx11, libsm, libxpm, libxt, libxtst, gtkplus
Link Dependencies:
ncurses, lua, perl, python, ruby, fontconfig, libx11, libsm, libxpm, libxt, libxtst, gtkplus
Run Dependencies:
cscope
Description:
Vim is a highly configurable text editor built to enable efficient text editing. It is an improved version of the vi editor distributed with most UNIX systems. Vim is often called a "programmer's editor," and so useful for programming that many consider it an entire IDE. It's not just for programmers, though. Vim is perfect for all kinds of text editing, from composing email to editing configuration files.

virtest

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Description:
Header-only unit test framework, as easy as possible to use

virtualgl

Homepage:
Spack package:
Versions:
2.5.2
Build Dependencies:
cmake, libjpeg-turbo, glu
Link Dependencies:
libjpeg-turbo, glu
Description:
VirtualGL redirects 3D commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream with which remote clients can interact to view and control the 3D application in real time.

virtuoso

Homepage:
Spack package:
Versions:
7.2.5.1-dev
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, bison, flex, gperf, readline, openssl
Link Dependencies:
gperf, readline, openssl
Description:
Virtuoso is a high-performance and scalable Multi-Model RDBMS, Data Integration Middleware, Linked Data Deployment, and HTTP Application Server Platform

visit

Homepage:
Spack package:
Versions:
develop, 3.2.2, 3.2.1, 3.1.1, 3.0.1
Build Dependencies:
cmake, ninja, mpi, vtk, glu, mesa-glu, qt, qwt, python, hdf5, silo, adios2, zlib
Link Dependencies:
mpi, vtk, glu, mesa-glu, qt, qwt, python, hdf5, silo, adios2, zlib
Run Dependencies:
python
Description:
VisIt is an Open Source, interactive, scalable, visualization, animation and analysis tool. See comments in VisIt's package.py for tips about building VisIt with spack. Building VisIt with Spack is still experimental and many standard features are likely disabled LINUX------------------------------------------------------------------- spack install visit ^python+shared ^glib@2.56.3 ^py-setuptools@44.1.0 LINUX-W/O-OPENGL-------------------------------------------------------- spack install visit ^python+shared ^glib@2.56.3 ^py-setuptools@44.1.0 \ ^mesa+opengl MACOS------------------------------------------------------------------- spack install visit ^python+shared ^glib@2.56.3 ^py-setuptools@44.1.0 \ ^qt~framework

visit-cgns

Homepage:
Spack package:
Versions:
develop, 3.2.0, 3.1.4, 3.1.1, 3.0.1, 2.13.3, 2.13.0, 2.12.3, 2.12.2, 2.10.3, 2.10.2, 2.10.1, local
Build Dependencies:
cmake, cgns, visit
Link Dependencies:
cgns, visit
Run Dependencies:
visit
Description:
This is the CGNS Plug-In for VisIt. It can be installed after VisIt is installed along CGNS library.

visit-ffp

Homepage:
Spack package:
Versions:
develop, 3.2.0, 3.1.4, 3.1.1, 3.0.1, local
Build Dependencies:
cmake, stripack, visit
Link Dependencies:
stripack, visit
Run Dependencies:
visit
Description:
This is the FFP Plug-In for VisIt. Can be installed after VisIt is installed with/without the STRIPACK library.

visit-mfem

Homepage:
Spack package:
Versions:
develop, 3.2.0, 3.1.4, 3.1.1, 3.0.1, 2.13.3, 2.13.0, 2.12.3, 2.12.2, 2.10.3, 2.10.2, 2.10.1, local
Build Dependencies:
cmake, mfem, visit
Link Dependencies:
mfem, visit
Run Dependencies:
visit
Description:
This is the MFEM Plug-In for VisIt. It can be installed after VisIt is installed along MFEM library.

visit-silo

Homepage:
Spack package:
Versions:
develop, 3.1.4, 3.1.3, 3.1.2, 3.1.1, 3.0.1, 2.13.3, 2.13.0, 2.12.3, 2.12.2, 2.10.3, 2.10.2, 2.10.1, local
Build Dependencies:
cmake, silo, visit
Link Dependencies:
silo, visit
Run Dependencies:
visit
Description:
This is the Silo Plug-In for VisIt. It can be installed after VisIt is installed along SILO library. It is made as an extension to VisIt that can be activated or as an environment with a view: ~/.visit Complete explanation at: https://github.com/spack/spack/pull/22907#issuecomment-824218296

visit-unv

Homepage:
Spack package:
Versions:
develop, 3.2.0, 3.1.4, 3.1.1, 3.0.1, 2.13.3, 2.13.0, 2.12.3, 2.12.2, 2.10.3, 2.10.2, 2.10.1, local
Build Dependencies:
cmake, visit
Link Dependencies:
visit
Run Dependencies:
visit
Description:
This is the UNV Plug-In for VisIt.

vite

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, qt, glm, glew, otf2, tau
Link Dependencies:
qt, glm, glew, otf2, tau
Description:
ViTE is a trace explorer. It is a tool to visualize execution traces in Paje or OTF2 format for debugging and profiling parallel or distributed applications.

vizglow

Homepage:
Spack package:
Versions:
2.2alpha20, 2.2alpha17, 2.2alpha15
Build Dependencies:
zlib, freetype, fontconfig, libxrender, xterm, libcanberra
Link Dependencies:
zlib, freetype, fontconfig, libxrender, xterm, libcanberra
Description:
VizGlow software tool is used for high-fidelity multi-dimensional modeling of non-equilibrium plasma discharges. Note: VizGlow is licensed software. You will need to create an account on the EsgeeTech homepage and download VizGlow yourself. Spack will search your current directory for a file of this format. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

vmatch

Homepage:
Spack package:
Versions:
2.3.0
Description:
Vmatch is a versatile software tool for efficiently solving large scale sequence matching tasks

vmc

Homepage:
Spack package:
Versions:
1-0-p3, 1-0-p2, 1-0-p1
Build Dependencies:
cmake, root
Link Dependencies:
root
Description:
The Virtual Monte Carlo (VMC) library

vmd

Homepage:
Spack package:
Versions:
1.9.3
Build Dependencies:
patchelf
Link Dependencies:
libx11, libxi, libxinerama, gl
Run Dependencies:
libx11, libxi, libxinerama, gl
Description:
VMD provides user-editable materials which can be applied to molecular geometry. These material properties control the details of how VMD shades the molecular geometry, and how transparent or opaque the displayed molecular geometry is. With this feature, one can easily create nice looking transparent surfaces which allow inner structural details to be seen within a large molecular structure. The material controls can be particularly helpful when rendering molecular scenes using external ray tracers, each of which typically differ slightly.

volk

Homepage:
Spack package:
Versions:
2.3.0
Build Dependencies:
cmake, python, py-mako
Run Dependencies:
python, py-mako
Description:
VOLK is the Vector-Optimized Library of Kernels. It is a library that contains kernels of hand-written SIMD code for different mathematical operations. Since each SIMD architecture can be very different and no compiler has yet come along to handle vectorization properly or highly efficiently, VOLK approaches the problem differently. For each architecture or platform that a developer wishes to vectorize for, a new proto-kernel is added to VOLK. At runtime, VOLK will select the correct proto-kernel. In this way, the users of VOLK call a kernel for performing the operation that is platform/architecture agnostic. This allows us to write portable SIMD code.

voropp

Homepage:
Spack package:
Versions:
0.4.6
Description:
Voro++ is a open source software library for the computation of the Voronoi diagram, a widely-used tessellation that has applications in many scientific fields.

votca

Homepage:
Spack package:
Versions:
master, stable, 2022
Build Dependencies:
cmake, expat, fftw-api, eigen, boost, mkl, hdf5, gromacs, libxc, libint, libecpint, py-h5py, py-lxml
Link Dependencies:
expat, fftw-api, eigen, boost, mkl, hdf5, gromacs, libxc, libint, libecpint, py-h5py, py-lxml
Test Dependencies:
lammps, py-espresso, py-pytest
Description:
VOTCA is a software package which focuses on the analysis of molecular dynamics data, the development of systematic coarse-graining techniques as well as methods used for simulating microscopic charge (and exciton) transport in disordered semiconductors.

votca-csg

Homepage:
Spack package:
Versions:
stable, 2021.2, 2021.1, 2021, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4.1, 1.4
Build Dependencies:
cmake, votca-tools, boost, gromacs, hdf5
Link Dependencies:
votca-tools, boost, gromacs, hdf5
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the VOTCA coarse-graining engine.

votca-csg-tutorials

Homepage:
Spack package:
Versions:
stable, 2021.2, 2021.1, 2021, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4.1, 1.4
Build Dependencies:
cmake, votca-csg, boost
Link Dependencies:
votca-csg, boost
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the VOTCA coarse-graining tutorials.

votca-csgapps

Homepage:
Spack package:
Versions:
1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4.1, 1.4
Build Dependencies:
cmake, votca-csg, boost
Link Dependencies:
votca-csg, boost
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the VOTCA coarse-graining extra apps.

votca-ctp

Homepage:
Spack package:
Versions:
1.5.1, 1.5
Build Dependencies:
cmake, votca-tools, votca-csg, gsl
Link Dependencies:
votca-tools, votca-csg, gsl
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the VOTCA charge transport engine.

votca-tools

Homepage:
Spack package:
Versions:
stable, 2021.2, 2021.1, 2021, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4.1, 1.4
Build Dependencies:
cmake, expat, fftw-api, gsl, eigen, boost, sqlite, mkl
Link Dependencies:
expat, fftw-api, gsl, eigen, boost, sqlite, mkl
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the basic tools library of VOTCA.

votca-xtp

Homepage:
Spack package:
Versions:
stable, 2021.2, 2021.1, 2021, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6, 1.5.1, 1.5, 1.4.1
Build Dependencies:
cmake, votca-tools, votca-csg, libxc, ceres-solver, hdf5, libint
Link Dependencies:
votca-tools, votca-csg, libxc, ceres-solver, hdf5, libint
Description:
Versatile Object-oriented Toolkit for Coarse-graining Applications (VOTCA) is a package intended to reduce the amount of routine work when doing systematic coarse-graining of various systems. The core is written in C++. This package contains the VOTCA exciton transport engine.

vpfft

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
eigen, fftw, mpi
Link Dependencies:
eigen, fftw, mpi
Description:
Proxy Application. VPFFT is an implementation of a mesoscale micromechanical materials model. By solving the viscoplasticity model, VPFFT simulates the evolution of a material under deformation. The solution time to the viscoplasticity model, described by a set of partial differential equations, is significantly reduced by the application of Fast Fourier Transform in the VPFFT algorithm.

vpic

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
VPIC is a general purpose particle-in-cell simulation code for modeling kinetic plasmas in one, two, or three spatial dimensions. It employs a second-order, explicit, leapfrog algorithm to update charged particle positions and velocities in order to solve the relativistic kinetic equation for each species in the plasma, along with a full Maxwell description for the electric and magnetic fields evolved via a second- order finite-difference-time-domain (FDTD) solve.

vsearch

Homepage:
Spack package:
Versions:
2.14.1, 2.13.3, 2.4.3
Build Dependencies:
gnuconfig, m4, autoconf, automake, libtool
Description:
VSEARCH is a versatile open-source tool for metagenomics.

vsftpd

Homepage:
Spack package:
Versions:
3.0.3, 3.0.2, 3.0.1
Build Dependencies:
libcap
Link Dependencies:
libcap
Description:
vsftpd is a GPL licensed FTP server for UNIX systems, including Linux.

vt

Homepage:
Spack package:
Versions:
0.5772, 0.577
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
A tool set for short variant discovery in genetic sequence data.

vtable-dumper

Homepage:
Spack package:
Versions:
1.2, 1.1, 1.0
Build Dependencies:
libelf
Link Dependencies:
libelf
Description:
A tool to list content of virtual tables in a shared library.

vtk

Homepage:
Spack package:
Versions:
9.1.0, 9.0.3, 9.0.1, 9.0.0, 8.2.0, 8.1.2, 8.1.1, 8.1.0, 8.0.1, 7.1.0, 7.0.0, 6.3.0, 6.1.0
Build Dependencies:
cmake, python, gl, glx, libxt, osmesa, qt, boost, ffmpeg, mpi, expat, freetype, glew, hdf5, jpeg, jsoncpp, libxml2, lz4, netcdf-c, netcdf-cxx, libpng, libtiff, zlib, eigen, double-conversion, sqlite, pugixml, libogg, libtheora, utf8cpp, gl2ps, proj, cgns, seacas
Link Dependencies:
gl, glx, libxt, osmesa, qt, boost, ffmpeg, mpi, expat, freetype, glew, hdf5, jpeg, jsoncpp, libxml2, lz4, netcdf-c, netcdf-cxx, libpng, libtiff, zlib, eigen, double-conversion, sqlite, pugixml, libogg, libtheora, utf8cpp, gl2ps, proj, cgns, seacas
Run Dependencies:
python, py-mpi4py
Description:
The Visualization Toolkit (VTK) is an open-source, freely available software system for 3D computer graphics, image processing and visualization.

vtk-h

Homepage:
Spack package:
Versions:
develop, 0.8.1, 0.8.0, 0.7.1, 0.7.0, 0.6.9, 0.6.8, 0.6.7, 0.6.6, 0.6.5, 0.6.4, 0.6.3, 0.6.2, 0.6.1, 0.6.0, 0.5.8, 0.5.7, 0.5.6, 0.5.4, 0.5.3, 0.5.2
Build Dependencies:
cuda, cmake, mpi, vtk-m
Link Dependencies:
cuda, mpi, vtk-m
Description:
VTK-h is a toolkit of scientific visualization algorithms for emerging processor architectures. VTK-h brings together several projects like VTK-m and DIY2 to provide a toolkit with hybrid parallel capabilities.

vtk-m

Homepage:
Spack package:
Versions:
master, 1.8.0-rc1, 1.7.1, 1.7.0, 1.6.0, 1.5.5, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.0, 1.2.0, 1.1.0, release
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, cmake, tbb, mpi, kokkos
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, tbb, mpi, kokkos
Description:
VTK-m is a toolkit of scientific visualization algorithms for emerging processor architectures. VTK-m supports the fine-grained concurrency for data analysis and visualization algorithms required to drive extreme scale computing by providing abstract models for data and execution that can be applied to a variety of algorithms across many different processor architectures.

vvtest

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.0
Build Dependencies:
python
Run Dependencies:
python
Description:
Vvtest is a test harness originally authored by Richard Drake for the Alegra-Emphasis project, written in pure Python, and designed for running verification, validation, and regression type tests. Being a stand-alone product, it can also be used by analysts to help manage sets of simulations, especially useful on batch platforms.

w3emc

Homepage:
Spack package:
Versions:
2.9.2, 2.9.1, 2.9.0, 2.7.3
Build Dependencies:
cmake, bacio, nemsio, sigio, netcdf-fortran
Link Dependencies:
bacio, nemsio, sigio, netcdf-fortran
Description:
This library contains Fortran 90 decoder/encoder routines for GRIB edition 1 with EMC changes. This is part of the NCEPLIBS project.

w3m

Homepage:
Spack package:
Versions:
0.5.3
Build Dependencies:
gnuconfig, bdw-gc, termcap, ncurses, openssl, libx11, gdk-pixbuf, imlib2
Link Dependencies:
bdw-gc, termcap, ncurses, openssl, libx11, gdk-pixbuf, imlib2
Description:
w3m is a text-based web browser as well as a pager like `more' or `less'. With w3m you can browse web pages through a terminal emulator window (xterm, rxvt or something like that). Moreover, w3m can be used as a text formatting tool which typesets HTML into plain text.

w3nco

Homepage:
Spack package:
Versions:
2.4.1
Build Dependencies:
cmake
Description:
This library contains Fortran 90 decoder/encoder routines for GRIB edition 1 with NCO changes. This library is deprecated; all functionality has been moved to the w3emc library. This is part of the NCEPLIBS project.

wannier90

Homepage:
Spack package:
Versions:
3.1.0, 3.0.0, 2.1.0, 2.0.1
Build Dependencies:
mpi, lapack, blas
Link Dependencies:
mpi, lapack, blas
Description:
Wannier90 calculates maximally-localised Wannier functions (MLWFs). Wannier90 is released under the GNU General Public License.

warpx

Homepage:
Spack package:
Versions:
develop, 22.05, 22.04, 22.03, 22.02, 22.01, 21.12, 21.11, 21.10, 21.09, 21.08, 21.07, 21.06, 21.05, 21.04
Build Dependencies:
cmake, ascent, boost, mpi, cuda, rocfft, rocprim, rocrand, fftw, pkgconfig, llvm-openmp, lapackpp, blaspp, openpmd-api
Link Dependencies:
ascent, boost, mpi, cuda, rocfft, rocprim, rocrand, fftw, llvm-openmp, lapackpp, blaspp, openpmd-api
Description:
WarpX is an advanced electromagnetic Particle-In-Cell code. It supports many features including Perfectly-Matched Layers (PML) and mesh refinement. In addition, WarpX is a highly-parallel and highly-optimized code and features hybrid OpenMP/MPI parallelization, advanced vectorization techniques and load balancing capabilities. For WarpX' Python bindings and PICMI input support, see the 'py-warpx' package.

watch

Homepage:
Spack package:
Versions:
master, 3.3.15
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, gettext, ncurses
Link Dependencies:
ncurses
Description:
Executes a program periodically, showing output fullscreen.

wayland

Homepage:
Spack package:
Versions:
1.18.0, 1.17.93, 1.17.92
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, doxygen, xmlto, libxslt, libxml2, chrpath, expat, libffi
Link Dependencies:
libxml2, chrpath, expat, libffi
Description:
Wayland is a project to define a protocol for a compositor to talk to its clients as well as a library implementation of the protocol. The compositor can be a standalone display server running on Linux kernel modesetting and evdev input devices, an X application, or a wayland client itself. The clients can be traditional applications, X servers(rootless or fullscreen) or other display servers.

wayland-protocols

Homepage:
Spack package:
Versions:
1.20
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, doxygen, xmlto, libxslt, wayland
Link Dependencies:
wayland
Description:
wayland-protocols contains Wayland protocols that add functionality not available in the Wayland core protocol. Such protocols either add completely new functionality, or extend the functionality of some other protocol either in Wayland core, or some other protocol i n wayland- protocols.

wcs

Homepage:
Spack package:
Versions:
develop, master
Build Dependencies:
cmake, boost, sbml, cereal
Link Dependencies:
boost, sbml
Description:
Simulates whole cell models using discrete event simulation.

wcslib

Homepage:
Spack package:
Versions:
7.3, 6.4
Build Dependencies:
gnuconfig, gmake, flex, cfitsio, libx11
Link Dependencies:
cfitsio, libx11
Description:
WCSLIB a C implementation of the coordinate transformations defined in the FITS WCS papers.

webbench

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
ntirpc
Link Dependencies:
ntirpc
Description:
Webbench is a simple website pressure test tool used in Linux.

weechat

Homepage:
Spack package:
Versions:
2.9
Build Dependencies:
cmake, python, gnutls, ncurses, aspell, libgcrypt, curl, zlib, ruby, tcl, perl, lua, guile, php
Link Dependencies:
python, gnutls, ncurses, aspell, libgcrypt, curl, zlib, ruby, tcl, perl, lua, guile, php
Description:
WeeChat is a fast, light and extensible chat client, with a text-based user interface.

weighttp

Homepage:
Spack package:
Versions:
0.4, 0.3, 0.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libev
Link Dependencies:
libev
Description:
A lightweight and simple webserver benchmarking tool

wget

Homepage:
Spack package:
Versions:
1.21.3, 1.21.2, 1.21.1, 1.21, 1.20.3, 1.19.1, 1.17, 1.16
Build Dependencies:
gnuconfig, gnutls, openssl, gettext, python, zlib, libpsl, pcre, perl, pkgconfig, iconv
Link Dependencies:
gnutls, openssl, zlib, libpsl, pcre, iconv
Test Dependencies:
valgrind
Description:
GNU Wget is a free software package for retrieving files using HTTP, HTTPS and FTP, the most widely-used Internet protocols. It is a non- interactive commandline tool, so it may easily be called from scripts, cron jobs, terminals without X-Windows support, etc.

wgrib2

Homepage:
Spack package:
Versions:
2.0.8-cmake-v6
Build Dependencies:
cmake, ip2, jasper, libpng, netcdf-c, netcdf-fortran, sp
Link Dependencies:
ip2, jasper, libpng, netcdf-c, netcdf-fortran, sp
Description:
The wgrib2 package functionality for interacting with, reading, writing, and manipulating GRIB2 files.

wgsim

Homepage:
Spack package:
Versions:
2011.10.17
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Wgsim is a small tool for simulating sequence reads from a reference genome. It is able to simulate diploid genomes with SNPs and insertion/deletion (INDEL) polymorphisms, and simulate reads with uniform substitution sequencing errors. It does not generate INDEL sequencing errors, but this can be partly compensated by simulating INDEL polymorphisms.

which

Homepage:
Spack package:
Versions:
2.21
Build Dependencies:
gnuconfig
Description:
GNU which - is a utility that is used to find which executable (or alias or shell function) is executed when entered on the shell prompt.

whizard

Homepage:
Spack package:
Versions:
master, 3.0.1, 3.0.0_alpha, 2.8.5, 2.8.4, 2.8.3, 2.8.2, 2.8.1, 2.8.0
Build Dependencies:
gnuconfig, libtirpc, ocaml, hepmc, hepmc3, lcio, pythia8, lhapdf, fastjet, openloops, texlive, zlib
Link Dependencies:
libtirpc, hepmc, hepmc3, lcio, pythia8, lhapdf, fastjet, openloops, texlive, zlib
Description:
WHIZARD is a program system designed for the efficient calculation of multi-particle scattering cross sections and simulated event samples.

wi4mpi

Homepage:
Spack package:
Versions:
3.5.0, 3.4.1, 3.3.0, 3.2.2, 3.2.1, 3.2.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
WI4MPI: Wrapper Interface For MPI performing a light translation between MPI constants and MPI objects from an MPI implementation to another one

windowswmproto

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig
Description:
This module provides the definition of the WindowsWM extension to the X11 protocol, used for coordination between an X11 server and the Microsoft Windows native window manager. WindowsWM is only intended to be used on Cygwin when running a rootless XWin server.

wiredtiger

Homepage:
Spack package:
Versions:
10.0.0
Build Dependencies:
gnuconfig, python, swig, lz4, snappy, zlib, zstd, rsync
Link Dependencies:
lz4, snappy, zlib, zstd
Run Dependencies:
python, swig
Description:
WiredTiger is an high performance, scalable, production quality, NoSQL, Open Source extensible platform for data management.

wireshark

Homepage:
Spack package:
Versions:
3.2.1, 3.2.0, 3.1.0, 3.0.8, 2.6.0
Build Dependencies:
cmake, bison, c-ares, doxygen, flex, git, glib, gnutls, libgcrypt, libmaxminddb, libtool, libpcap, lua, krb5, pkgconfig, libssh, nghttp2, qt
Link Dependencies:
c-ares, glib, gnutls, libgcrypt, libmaxminddb, libpcap, lua, krb5, libssh, nghttp2, qt
Description:
Graphical network analyzer and capture tool

wonton

Homepage:
Spack package:
Versions:
1.3.2, 1.2.11, 1.2.10, 1.2.1
Build Dependencies:
cmake, netlib-lapack, mpi, flecsi, jali, thrust, boost, cuda, kokkos
Link Dependencies:
netlib-lapack, mpi, flecsi, jali, thrust, boost, cuda, kokkos
Description:
Wonton is a support package for the Portage (https://github.com/laristra/portage) and Tangram (https://github.com/laristra/tangram) libraries. It contains some mesh/state classes, wrappers for other mesh/state libraries and some utilities required by Portage and Tangram.

wordnet

Homepage:
Spack package:
Versions:
3.0
Build Dependencies:
gnuconfig, tk, tcl
Link Dependencies:
tk, tcl
Description:
WordNet is a large lexical database of English. Nouns, verbs, adjectives and adverbs are grouped into sets of cognitive synonyms (synsets), each expressing a distinct concept.

workrave

Homepage:
Spack package:
Versions:
1_10_20, 1_10_19, 1_10_18, 1_10_17, 1_10_16, 1_10_15, 1_10_14, 1_10_13, 1_10_12, 1_10_10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, libx11, py-cheetah, glib, glibmm, gtkplus, gtkmm, libsigcpp
Link Dependencies:
libx11, py-cheetah, glib, glibmm, gtkplus, gtkmm, libsigcpp
Description:
Workrave is a program that assists in the recovery and prevention of Repetitive Strain Injury (RSI). The program frequently alerts you to take micro-pauses, rest breaks and restricts you to your daily limit. The program runs on GNU/Linux and Microsoft Windows.

wps

Homepage:
Spack package:
Versions:
4.3.1, 4.3, 4.2
Build Dependencies:
wrf, netcdf-c, netcdf-fortran, tcsh, time, m4, libtool, jasper
Link Dependencies:
wrf, netcdf-c, netcdf-fortran, jasper
Description:
The Weather Research and Forecasting Pre-Processing System (WPS)

wrf

Homepage:
Spack package:
Versions:
4.3.3, 4.3.2, 4.3.1, 4.2, 4.0, 3.9.1.1
Build Dependencies:
pkgconfig, libtirpc, mpi, parallel-netcdf, netcdf-c, netcdf-fortran, jasper, libpng, zlib, perl, jemalloc, hdf5, tcsh, time, m4, libtool
Link Dependencies:
libtirpc, mpi, parallel-netcdf, netcdf-c, netcdf-fortran, jasper, libpng, zlib, perl, jemalloc, hdf5
Description:
The Weather Research and Forecasting (WRF) Model is a next-generation mesoscale numerical weather prediction system designed for both atmospheric research and operational forecasting applications.

wrf-io

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
cmake, netcdf-c, netcdf-fortran
Link Dependencies:
netcdf-c, netcdf-fortran
Description:
The WRFIO package is a lightweight WRF-IO API library for Unified Post Processor (UPP). It reads wrf forecasts (WRF state plus diagnostics). This is part of the NCEPLIBS project.

wrk

Homepage:
Spack package:
Versions:
4.1.0, 4.0.2, 4.0.1, 4.0.0, 3.1.2
Description:
Wrk is a modern HTTP benchmarking tool capable of generating significant load when run on a single multi-core CPU.

wsmancli

Homepage:
Spack package:
Versions:
2.6.0, 2.5.0, 2.3.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, openwsman
Link Dependencies:
openwsman
Description:
Openwsman command line client

wt

Homepage:
Spack package:
Versions:
master, 3.3.7
Build Dependencies:
cmake, pkgconfig, boost, openssl, libharu, sqlite, mariadb, postgresql, pango, zlib
Link Dependencies:
boost, openssl, libharu, sqlite, mariadb, postgresql, pango, zlib
Description:
Wt, C++ Web Toolkit. Wt is a C++ library for developing web applications.

wtdbg2

Homepage:
Spack package:
Versions:
2.3
Build Dependencies:
zlib, sse2neon
Link Dependencies:
zlib, sse2neon
Description:
A fuzzy Bruijn graph approach to long noisy reads assembly

wxparaver

Homepage:
Spack package:
Versions:
4.9.2, 4.9.1, 4.9.0, 4.8.2, 4.8.1, 4.8.0, 4.7.2, 4.7.1, 4.7.0
Build Dependencies:
gnuconfig, boost, wxwidgets, wxpropgrid, libxml2, zlib
Link Dependencies:
boost, wxwidgets, wxpropgrid, libxml2, zlib
Description:
"A very powerful performance visualization and analysis tool based on traces that can be used to analyse any information that is expressed on its input trace format. Traces for parallel MPI, OpenMP and other programs can be genereated with Extrae.

wxpropgrid

Homepage:
Spack package:
Versions:
1.4.15
Build Dependencies:
wxwidgets
Link Dependencies:
wxwidgets
Description:
wxPropertyGrid is a property sheet control for wxWidgets. In other words, it is a specialized two-column grid for editing properties such as strings, numbers, flagsets, string arrays, and colours.

wxwidgets

Homepage:
Spack package:
Versions:
develop, 3.1.0, 3.0.2, 3.0.1
Build Dependencies:
gnuconfig, pkgconfig, gtkplus
Link Dependencies:
gtkplus
Description:
wxWidgets is a C++ library that lets developers create applications for Windows, Mac OS X, Linux and other platforms with a single code base. It has popular language bindings for Python, Perl, Ruby and many other languages, and unlike other cross-platform toolkits, wxWidgets gives applications a truly native look and feel because it uses the platform's native API rather than emulating the GUI. It's also extensive, free, open-source and mature.

x11perf

Homepage:
Spack package:
Versions:
1.6.0
Build Dependencies:
gnuconfig, libx11, libxmu, libxrender, libxft, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, libxrender, libxft, xproto
Description:
Simple X server performance benchmarker.

x264

Homepage:
Spack package:
Versions:
20210613
Build Dependencies:
gnuconfig, nasm
Link Dependencies:
nasm
Description:
Software library and application for encoding video streams

xabclib

Homepage:
Spack package:
Versions:
1.03
Description:
Xabclib (eXtended ABCLib) is a numerical library with auto-tuning facility.

xapian-core

Homepage:
Spack package:
Versions:
1.4.19, 1.4.11, 1.4.3
Build Dependencies:
gnuconfig, zlib
Link Dependencies:
zlib
Description:
Xapian is a highly adaptable toolkit which allows developers to easily add advanced indexing and search facilities to their own applications. It supports the Probabilistic Information Retrieval model and also supports a rich set of boolean query operators.

xauth

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, libx11, libxau, libxext, libxmu, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxau, libxext, libxmu, xproto
Description:
The xauth program is used to edit and display the authorization information used in connecting to the X server.

xbacklight

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
gnuconfig, libxcb, xcb-util, pkgconfig, util-macros
Link Dependencies:
libxcb, xcb-util
Description:
Xbacklight is used to adjust the backlight brightness where supported. It uses the RandR extension to find all outputs on the X server supporting backlight brightness control and changes them all in the same way.

xbiff

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxaw, libxmu, libxext, libx11, xbitmaps, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxext, libx11, xbitmaps
Description:
xbiff provides graphical notification of new e-mail. It only handles mail stored in a filesystem accessible file, not via IMAP, POP or other remote access protocols.

xbitmaps

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
The xbitmaps package contains bitmap images used by multiple applications built in Xorg.

xbraid

Homepage:
Spack package:
Versions:
3.0.0, 2.3.0, 2.2.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
XBraid: Parallel time integration with Multigrid

xcalc

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libxaw, libxt, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt, libx11, xproto
Description:
xcalc is a scientific calculator X11 client that can emulate a TI-30 or an HP-10C.

xcb-demo

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
gnuconfig, libxcb, xcb-util, xcb-util-image, xcb-util-wm, pkgconfig
Link Dependencies:
libxcb, xcb-util, xcb-util-image, xcb-util-wm
Description:
xcb-demo: A collection of demo programs that use the XCB library.

xcb-proto

Homepage:
Spack package:
Versions:
1.14.1, 1.14, 1.13, 1.12, 1.11
Build Dependencies:
gnuconfig
Description:
xcb-proto provides the XML-XCB protocol descriptions that libxcb uses to generate the majority of its code and API.

xcb-util

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
gnuconfig, libxcb, pkgconfig
Link Dependencies:
libxcb
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-cursor

Homepage:
Spack package:
Versions:
0.1.3
Build Dependencies:
gnuconfig, libxcb, xcb-util-renderutil, xcb-util-image, m4, pkgconfig
Link Dependencies:
libxcb, xcb-util-renderutil, xcb-util-image
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-errors

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
gnuconfig, libxcb, xcb-proto, pkgconfig
Link Dependencies:
libxcb, xcb-proto
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-image

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
gnuconfig, libxcb, xcb-util, xproto, pkgconfig
Link Dependencies:
libxcb, xcb-util, xproto
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-keysyms

Homepage:
Spack package:
Versions:
0.4.0
Build Dependencies:
gnuconfig, libxcb, xproto, pkgconfig
Link Dependencies:
libxcb, xproto
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-renderutil

Homepage:
Spack package:
Versions:
0.3.9
Build Dependencies:
gnuconfig, libxcb, pkgconfig
Link Dependencies:
libxcb
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-wm

Homepage:
Spack package:
Versions:
0.4.1
Build Dependencies:
gnuconfig, m4, libxcb, pkgconfig
Link Dependencies:
libxcb
Description:
The XCB util modules provides a number of libraries which sit on top of libxcb, the core X protocol library, and some of the extension libraries. These experimental libraries provide convenience functions and interfaces which make the raw X protocol more usable. Some of the libraries also provide client-side code which is not strictly part of the X protocol but which have traditionally been provided by Xlib.

xcb-util-xrm

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, pkgconfig, libxcb
Link Dependencies:
libxcb
Description:
XCB util-xrm module provides the 'xrm' library, i.e. utility functions for the X resource manager.

xcfun

Homepage:
Spack package:
Versions:
2.1.0, 2.0.2, 2.0.1, 2.0.0
Build Dependencies:
cmake, python, py-pybind11, py-numpy
Link Dependencies:
python, py-pybind11, py-numpy
Run Dependencies:
python
Description:
Exchange-Correlation functionals with arbitrary order derivatives.

xclip

Homepage:
Spack package:
Versions:
0.13
Build Dependencies:
gnuconfig, libxmu, libx11, autoconf, automake, libtool, m4
Link Dependencies:
libxmu, libx11
Description:
xclip is a command line utility that is designed to run on any system with an X11 implementation. It provides an interface to X selections ("the clipboard") from the command line. It can read data from standard in or a file and place it in an X selection for pasting into other X applications. xclip can also print an X selection to standard out, which can then be redirected to a file or another program.

xclipboard

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, libxkbfile, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11, libxkbfile, xproto
Description:
xclipboard is used to collect and display text selections that are sent to the CLIPBOARD by other clients. It is typically used to save CLIPBOARD selections for later use. It stores each CLIPBOARD selection as a separate string, each of which can be selected.

xclock

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, libxaw, libxmu, libx11, libxrender, libxft, libxkbfile, libxt, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libx11, libxrender, libxft, libxkbfile, libxt, xproto
Description:
xclock is the classic X Window System clock utility. It displays the time in analog or digital form, continuously updated at a frequency which may be specified by the user.

xcmiscproto

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
XC-MISC Extension. This extension defines a protocol that provides Xlib two ways to query the server for available resource IDs.

xcmsdb

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, pkgconfig, util-macros
Link Dependencies:
libx11
Description:
xcmsdb is used to load, query, or remove Device Color Characterization data stored in properties on the root window of the screen as specified in section 7, Device Color Characterization, of the X11 Inter-Client Communication Conventions Manual (ICCCM).

xcompmgr

Homepage:
Spack package:
Versions:
1.1.7
Build Dependencies:
gnuconfig, libxcomposite, libxfixes, libxdamage, libxrender, libxext, pkgconfig, util-macros
Link Dependencies:
libxcomposite, libxfixes, libxdamage, libxrender, libxext
Description:
xcompmgr is a sample compositing manager for X servers supporting the XFIXES, DAMAGE, RENDER, and COMPOSITE extensions. It enables basic eye- candy effects.

xconsole

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11, xproto
Description:
xconsole displays in a X11 window the messages which are usually sent to /dev/console.

xcursor-themes

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
libxcursor, xcursorgen, pkgconfig, util-macros
Link Dependencies:
libxcursor
Description:
This is a default set of cursor themes for use with libXcursor, originally created for the XFree86 Project, and now shipped as part of the X.Org software distribution.

xcursorgen

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libx11, libxcursor, libpng, pkgconfig, util-macros
Link Dependencies:
libx11, libxcursor, libpng
Description:
xcursorgen prepares X11 cursor sets for use with libXcursor.

xdbedizzy

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, libx11, libxext, pkgconfig, util-macros
Link Dependencies:
libx11, libxext
Description:
xdbedizzy is a demo of the X11 Double Buffer Extension (DBE) creating a double buffered spinning scene.

xdelta

Homepage:
Spack package:
Versions:
3.1.0, 3.0.11, 3.0.10
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, go
Link Dependencies:
go
Description:
Xdelta version 3 is a C library and command-line tool for delta compression using VCDIFF/RFC 3284 streams.

xditview

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11
Description:
xditview displays ditroff output on an X display.

xdm

Homepage:
Spack package:
Versions:
1.1.11
Build Dependencies:
gnuconfig, libxmu, libx11, libxau, libxinerama, libxft, libxpm, libxaw, libxdmcp, libxt, libxext, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, libxau, libxinerama, libxft, libxpm, libxaw, libxdmcp, libxt, libxext
Description:
X Display Manager / XDMCP server.

xdmf3

Homepage:
Spack package:
Versions:
2019-01-14
Build Dependencies:
cmake, libxml2, boost, mpi, hdf5
Link Dependencies:
libxml2, boost, mpi, hdf5
Description:
XDMF, or eXtensible Data Model and Format (XDMF), is a common data model format to exchange scientific data between High Performance Computing codes and tools.

xdotool

Homepage:
Spack package:
Versions:
3.20160805.1, 3.20160804.2, 3.20160804.1, 3.20150503.1
Build Dependencies:
libxext, libxtst, libxi, libx11, inputproto, libxinerama, libxkbcommon
Link Dependencies:
libxext, libxtst, libxi, libx11, inputproto, libxinerama, libxkbcommon
Description:
fake keyboard/mouse input, window management, and more

xdpyinfo

Homepage:
Spack package:
Versions:
1.3.2
Build Dependencies:
gnuconfig, libxext, libx11, libxtst, libxcb, xproto, recordproto, inputproto, fixesproto, pkgconfig, util-macros
Link Dependencies:
libxext, libx11, libxtst, libxcb, xproto, recordproto, inputproto, fixesproto
Description:
xdpyinfo is a utility for displaying information about an X server. It is used to examine the capabilities of a server, the predefined values for various parameters used in communicating between clients and the server, and the different types of screens, visuals, and X11 protocol extensions that are available.

xdriinfo

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, expat, libxshmfence, libxext, libxdamage, libxfixes, pcre, gl, glproto, pkgconfig, util-macros
Link Dependencies:
libx11, expat, libxshmfence, libxext, libxdamage, libxfixes, pcre, gl, glproto
Description:
xdriinfo - query configuration information of X11 DRI drivers.

xedit

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11
Description:
Xedit is a simple text editor for X.

xerces-c

Homepage:
Spack package:
Versions:
3.2.3, 3.2.2, 3.2.1, 3.1.4, 3.1.3
Build Dependencies:
gnuconfig, curl
Link Dependencies:
iconv, icu4c, curl
Description:
Xerces-C++ is a validating XML parser written in a portable subset of C++. Xerces-C++ makes it easy to give your application the ability to read and write XML data. A shared library is provided for parsing, generating, manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs.

xeus

Homepage:
Spack package:
Versions:
develop, 1.0.4, 0.15.0, 0.14.1
Build Dependencies:
cmake, libzmq, cppzmq, cryptopp, openssl, xtl, nlohmann-json, uuid
Link Dependencies:
libzmq, cppzmq, cryptopp, openssl, xtl, nlohmann-json, uuid
Description:
QuantStack C++ implementation of Jupyter kernel protocol

xev

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, libxrandr, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxrandr, libx11, xproto
Description:
xev creates a window and then asks the X server to send it X11 events whenever anything happens to the window (such as it being moved, resized, typed in, clicked in, etc.). You can also attach it to an existing window. It is useful for seeing what causes events to occur and to display the information that they contain; it is essentially a debugging and development tool, and should not be needed in normal usage.

xextproto

Homepage:
Spack package:
Versions:
7.3.0
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Protocol Extensions.

xeyes

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, libx11, libxt, libxext, libxmu, libxrender, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libxext, libxmu, libxrender
Description:
xeyes - a follow the mouse X demo, using the X SHAPE extension

xf86bigfontproto

Homepage:
Spack package:
Versions:
1.2.0
Build Dependencies:
gnuconfig
Description:
X.org XF86BigFontProto protocol headers.

xf86dga

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxxf86dga, pkgconfig, util-macros
Link Dependencies:
libx11, libxxf86dga
Description:
dga is a simple test client for the XFree86-DGA extension.

xf86dgaproto

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
gnuconfig
Description:
X.org XF86DGAProto protocol headers.

xf86driproto

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
XFree86 Direct Rendering Infrastructure Extension. This extension defines a protocol to allow user applications to access the video hardware without requiring data to be passed through the X server.

xf86miscproto

Homepage:
Spack package:
Versions:
0.9.3
Build Dependencies:
gnuconfig
Description:
This package includes the protocol definitions of the "XFree86-Misc" extension to the X11 protocol. The "XFree86-Misc" extension is supported by the XFree86 X server and versions of the Xorg X server prior to Xorg 1.6.

xf86rushproto

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig
Description:
X.org XF86RushProto protocol headers.

xf86vidmodeproto

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
XFree86 Video Mode Extension. This extension defines a protocol for dynamically configuring modelines and gamma.

xfd

Homepage:
Spack package:
Versions:
1.1.3, 1.1.2
Build Dependencies:
gnuconfig, fontconfig, gettext, libxaw, libxft, libxrender, libxmu, libxt, xproto, pkgconfig, util-macros
Link Dependencies:
fontconfig, gettext, libxaw, libxft, libxrender, libxmu, libxt, xproto
Description:
xfd - display all the characters in a font using either the X11 core protocol or libXft2.

xfindproxy

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libice, libxt, xproto, xproxymanagementprotocol, pkgconfig, util-macros
Link Dependencies:
libice, libxt, xproto, xproxymanagementprotocol
Description:
xfindproxy is used to locate available X11 proxy services. It utilizes the Proxy Management Protocol to communicate with a proxy manager. The proxy manager keeps track of all available proxy services, starts new proxies when necessary, and makes sure that proxies are shared whenever possible.

xfontsel

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11
Description:
xfontsel application provides a simple way to display the X11 core protocol fonts known to your X server, examine samples of each, and retrieve the X Logical Font Description ("XLFD") full name for a font.

xforms

Homepage:
Spack package:
Versions:
1.2.4, 1.2.3, 1.0.91
Build Dependencies:
gnuconfig
Link Dependencies:
libx11, libxpm, jpeg
Description:
This is the Free Software distribution of the XForms Library, a graphical user interface toolkit for X Window Systems.

xfs

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libxfont, font-util, xproto, fontsproto, xtrans, pkgconfig, util-macros
Link Dependencies:
libxfont, font-util, xproto, fontsproto, xtrans
Description:
X Font Server.

xfsdump

Homepage:
Spack package:
Versions:
3.1.6, 3.1.5, 3.1.4
Build Dependencies:
gettext, autoconf, automake, libtool, m4, util-linux, attr, xfsprogs
Link Dependencies:
gettext, util-linux, attr, xfsprogs
Description:
XFS Dump Tools.

xfsinfo

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libfs, xproto, pkgconfig, util-macros
Link Dependencies:
libfs, xproto
Description:
xfsinfo is a utility for displaying information about an X font server. It is used to examine the capabilities of a server, the predefined values for various parameters used in communicating between clients and the server, and the font catalogues and alternate servers that are available.

xfsprogs

Homepage:
Spack package:
Versions:
5.11.0, 5.8.0, 5.7.0, 5.6.0, 4.20.0
Build Dependencies:
gnuconfig, libinih, gettext, uuid, util-linux
Link Dependencies:
libinih, gettext, uuid, util-linux
Description:
XFS User Tools.

xfwp

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libice, xproto, xproxymanagementprotocol, pkgconfig, util-macros
Link Dependencies:
libice, xproto, xproxymanagementprotocol
Description:
xfwp proxies X11 protocol connections, such as through a firewall.

xgamma

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libx11, libxxf86vm, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxxf86vm, xproto
Description:
xgamma allows X users to query and alter the gamma correction of a monitor via the X video mode extension (XFree86-VidModeExtension).

xgboost

Homepage:
Spack package:
Versions:
master, 1.5.2, 1.3.3
Build Dependencies:
cuda, cmake, ninja, nccl, llvm-openmp
Link Dependencies:
cuda, nccl, llvm-openmp
Description:
XGBoost is an optimized distributed gradient boosting library designed to be highly efficient, flexible and portable. It implements machine learning algorithms under the Gradient Boosting framework. XGBoost provides a parallel tree boosting (also known as GBDT, GBM) that solve many data science problems in a fast and accurate way. The same code runs on major distributed environment (Hadoop, SGE, MPI) and can solve problems beyond billions of examples.

xgc

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libxaw, libxt, flex, bison, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt
Description:
xgc is an X11 graphics demo that shows various features of the X11 core protocol graphics primitives.

xhmm

Homepage:
Spack package:
Versions:
20160104
Build Dependencies:
lapack
Link Dependencies:
lapack
Description:
The XHMM C++ software suite was written to call copy number variation (CNV) from next-generation sequencing projects, where exome capture was used (or targeted sequencing, more generally).

xhost

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
gnuconfig, libx11, libxmu, libxau, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, libxau, xproto
Description:
xhost is used to manage the list of host names or user names allowed to make connections to the X server.

xineramaproto

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Xinerama Extension. This is an X extension that allows multiple physical screens controlled by a single X server to appear as a single screen.

xinit

Homepage:
Spack package:
Versions:
1.3.4
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
The xinit program is used to start the X Window System server and a first client program on systems that are not using a display manager such as xdm.

xinput

Homepage:
Spack package:
Versions:
1.6.2
Build Dependencies:
gnuconfig, libx11, libxext, libxi, libxrandr, libxinerama, inputproto, fixesproto, randrproto, xineramaproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxext, libxi, libxrandr, libxinerama, inputproto, fixesproto, randrproto, xineramaproto
Description:
xinput is a utility to configure and test XInput devices.

xios

Homepage:
Spack package:
Versions:
develop, 2.5, 2.0, 1.0
Build Dependencies:
netcdf-c, netcdf-fortran, hdf5, mpi, boost, blitz, perl, perl-uri, gmake
Link Dependencies:
netcdf-c, netcdf-fortran, hdf5, mpi, boost, blitz
Description:
XML-IO-SERVER library for IO management of climate models.

xkbcomp

Homepage:
Spack package:
Versions:
1.4.4, 1.3.1
Build Dependencies:
gnuconfig, libx11, libxkbfile, xproto, bison, pkgconfig, util-macros
Link Dependencies:
libx11, libxkbfile, xproto
Description:
The X Keyboard (XKB) Extension essentially replaces the core protocol definition of a keyboard. The extension makes it possible to specify clearly and explicitly most aspects of keyboard behaviour on a per-key basis, and to track more closely the logical and physical state of a keyboard. It also includes a number of keyboard controls designed to make keyboards more accessible to people with physical impairments.

xkbdata

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, xkbcomp
Description:
The XKB data files for the various keyboard models, layouts, and locales.

xkbevd

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libxkbfile, libx11, bison, pkgconfig, util-macros
Link Dependencies:
libxkbfile, libx11
Description:
XKB event daemon demo.

xkbprint

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxkbfile, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxkbfile, libx11, xproto
Description:
xkbprint generates a printable or encapsulated PostScript description of an XKB keyboard description.

xkbutils

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxaw, libxt, libx11, xproto, inputproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt, libx11, xproto, inputproto
Description:
xkbutils is a collection of small utilities utilizing the XKeyboard (XKB) extension to the X11 protocol.

xkeyboard-config

Homepage:
Spack package:
Versions:
2.18
Build Dependencies:
gnuconfig, libx11, libxslt, pkgconfig, intltool, xproto
Link Dependencies:
libx11, xproto
Description:
This project provides a consistent, well-structured, frequently released, open source database of keyboard configuration data. The project is targeted to XKB-based systems.

xkill

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libx11, libxmu, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, xproto
Description:
xkill is a utility for forcing the X server to close connections to clients. This program is very dangerous, but is useful for aborting programs that have displayed undesired windows on a user's screen.

xlc

Homepage:
Spack package:
Description:
IBM XL C/C++ is an advanced, high-performance compiler that can be used for developing complex, computationally intensive programs, including interlanguage calls with C and Fortran programs.

xlf

Homepage:
Spack package:
Description:
IBM XL Fortran is an advanced, high-performance compiler that can be used for developing complex, computationally intensive programs, including interlanguage calls with C and Fortran programs.

xload

Homepage:
Spack package:
Versions:
1.1.3, 1.1.2
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11, xproto
Description:
xload displays a periodically updating histogram of the system load average.

xlsatoms

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
gnuconfig, libxcb, libx11, pkgconfig, util-macros
Link Dependencies:
libxcb, libx11
Description:
xlsatoms lists the interned atoms defined on an X11 server.

xlsclients

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libxcb, libx11, pkgconfig, util-macros
Link Dependencies:
libxcb, libx11
Description:
xlsclients is a utility for listing information about the client applications running on a X11 server.

xlsfonts

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
xlsfonts lists fonts available from an X server via the X11 core protocol.

xmag

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11
Description:
xmag displays a magnified snapshot of a portion of an X11 screen.

xman

Homepage:
Spack package:
Versions:
1.1.4
Build Dependencies:
gnuconfig, libxaw, libxt, xproto, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt, xproto
Description:
xman is a graphical manual page browser using the Athena Widgets (Xaw) toolkit.

xmessage

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxaw, libxt, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt
Description:
xmessage displays a message or query in a window. The user can click on an "okay" button to dismiss it or can select one of several buttons to answer a question. xmessage can also exit after a specified time.

xmh

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxaw, libxmu, libxt, libx11, xbitmaps, pkgconfig, util-macros
Link Dependencies:
libxaw, libxmu, libxt, libx11, xbitmaps
Description:
The xmh program provides a graphical user interface to the MH Message Handling System. To actually do things with your mail, it makes calls to the MH package.

xmlf90

Homepage:
Spack package:
Versions:
1.5.4, 1.5.3, 1.5.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
xmlf90 is a suite of libraries to handle XML in Fortran.

xmlrpc-c

Homepage:
Spack package:
Versions:
1.51.06
Build Dependencies:
gnuconfig
Description:
Programming library for writing an XML-RPC server or client in C or C++.

xmlto

Homepage:
Spack package:
Versions:
0.0.28
Build Dependencies:
gnuconfig, libxslt
Link Dependencies:
libxslt
Description:
Utility xmlto is a simple shell script for converting XML files to various formats. It serves as easy to use command line frontend to make fine output without remembering many long options and searching for the syntax of the backends.

xmodmap

Homepage:
Spack package:
Versions:
1.0.9
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
The xmodmap program is used to edit and display the keyboard modifier map and keymap table that are used by client applications to convert event keycodes into keysyms. It is usually run from the user's session startup script to configure the keyboard according to personal tastes.

xmore

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
gnuconfig, libxaw, libxt, pkgconfig, util-macros
Link Dependencies:
libxaw, libxt
Description:
xmore - plain text display program for the X Window System.

xnnpack

Homepage:
Spack package:
Versions:
master, 2021-02-22, 2020-03-23, 2020-02-24
Build Dependencies:
cmake, ninja, python
Description:
High-efficiency floating-point neural network inference operators for mobile, server, and Web

xorg-cf-files

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, pkgconfig
Description:
The xorg-cf-files package contains the data files for the imake utility, defining the known settings for a wide variety of platforms (many of which have not been verified or tested in over a decade), and for many of the libraries formerly delivered in the X.Org monolithic releases.

xorg-docs

Homepage:
Spack package:
Versions:
1.7.1
Build Dependencies:
gnuconfig, pkgconfig, util-macros, xorg-sgml-doctools, xmlto
Description:
This package provides miscellaneous documentation for the X Window System that doesn't better fit into other packages. The preferred documentation format for these documents is DocBook XML.

xorg-gtest

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
gnuconfig, libx11, libxi, xorg-server, pkgconfig, util-macros
Link Dependencies:
libx11, libxi, xorg-server
Description:
Provides a Google Test environment for starting and stopping a X server for testing purposes.

xorg-sgml-doctools

Homepage:
Spack package:
Versions:
1.11
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
This package provides a common set of SGML entities and XML/CSS style sheets used in building/formatting the documentation provided in other X.Org packages.

xphelloworld

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libx11, libxaw, libxprintapputil, libxprintutil, libxp, libxt, pkgconfig, util-macros
Link Dependencies:
libx11, libxaw, libxprintapputil, libxprintutil, libxp, libxt
Description:
Xprint sample applications.

xplor-nih

Homepage:
Spack package:
Versions:
2.45
Build Dependencies:
python
Run Dependencies:
python
Description:
XPLOR-NIH is a structure determination program. Note: A manual download is required for XPLOR-NIH. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

xplsprinters

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libxp, libxprintutil, libx11, pkgconfig, util-macros
Link Dependencies:
libxp, libxprintutil, libx11
Description:
List Xprint printers.

xpmem

Homepage:
Spack package:
Versions:
master, 2.6.5-36, 2.6.5, 2.6.4, 2.6.3, 2.6.2
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
XPMEM is a Linux kernel module that enables a process to map the memory of another process into its virtual address space.

xpr

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libxmu, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, xproto
Description:
xpr takes as input a window dump file produced by xwd and formats it for output on various types of printers.

xprehashprinterlist

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, libxp, libx11, pkgconfig, util-macros
Link Dependencies:
libxp, libx11
Description:
Rehash list of Xprint printers.

xprop

Homepage:
Spack package:
Versions:
1.2.2
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
xprop is a command line tool to display and/or set window and font properties of an X server.

xproperty

Homepage:
Spack package:
Versions:
master, 0.11.0
Build Dependencies:
cmake, xtl
Link Dependencies:
xtl
Description:
C++ library providing traitlets-style properties

xproto

Homepage:
Spack package:
Versions:
7.0.31, 7.0.29
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
X Window System Core Protocol. This package provides the headers and specification documents defining the X Window System Core Protocol, Version 11. It also includes a number of headers that aren't purely protocol related, but are depended upon by many other X Window System packages to provide common definitions and porting layer.

xproxymanagementprotocol

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig
Description:
The Proxy Management Protocol is an ICE based protocol that provides a way for application servers to easily locate proxy services available to them.

xqilla

Homepage:
Spack package:
Versions:
2.3.3
Build Dependencies:
gnuconfig, xerces-c
Link Dependencies:
xerces-c
Description:
XQilla is an XQuery and XPath 2 library and command line utility written in C++, implemented on top of the Xerces-C library.

xrandr

Homepage:
Spack package:
Versions:
1.5.0
Build Dependencies:
gnuconfig, libxrandr, libxrender, libx11, randrproto, xproto, pkgconfig, util-macros
Link Dependencies:
libxrandr, libxrender, libx11, randrproto, xproto
Description:
xrandr - primitive command line interface to X11 Resize, Rotate, and Reflect (RandR) extension.

xrdb

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
gnuconfig, libxmu, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, xproto
Description:
xrdb - X server resource database utility.

xrefresh

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
xrefresh - refresh all or part of an X screen.

xrootd

Homepage:
Spack package:
Versions:
5.3.2, 5.3.1, 5.1.0, 5.0.3, 5.0.1, 4.12.6, 4.12.3, 4.12.2, 4.12.1, 4.12.0, 4.11.3, 4.11.2, 4.10.0, 4.8.5, 4.8.4, 4.8.3, 4.8.2, 4.8.1, 4.8.0, 4.7.1, 4.7.0, 4.6.1, 4.6.0, 4.5.0, 4.4.1, 4.4.0, 4.3.0
Build Dependencies:
cmake, bzip2, libxml2, uuid, openssl, python, readline, xz, zlib, curl, krb5, json-c, scitokens-cpp
Link Dependencies:
bzip2, libxml2, uuid, openssl, python, readline, xz, zlib, curl, krb5, json-c, scitokens-cpp
Run Dependencies:
python
Description:
The XROOTD project aims at giving high performance, scalable fault tolerant access to data repositories of many kinds.

xrx

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libx11, libxt, libxext, libxau, libice, libxaw, xtrans, xproxymanagementprotocol, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libxext, libxau, libice, libxaw, xtrans, xproxymanagementprotocol
Description:
The remote execution (RX) service specifies a MIME format for invoking applications remotely, for example via a World Wide Web browser. This RX format specifies a syntax for listing network services required by the application, for example an X display server. The requesting Web browser must identify specific instances of the services in the request to invoke the application.

xsbench

Homepage:
Spack package:
Versions:
19, 18, 14, 13
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
XSBench is a mini-app representing a key computational kernel of the Monte Carlo neutronics application OpenMC. A full explanation of the theory and purpose of XSBench is provided in docs/XSBench_Theory.pdf.

xscope

Homepage:
Spack package:
Versions:
1.4.1
Build Dependencies:
gnuconfig, xproto, xtrans, pkgconfig, util-macros
Link Dependencies:
xproto, xtrans
Description:
XSCOPE -- a program to monitor X11/Client conversations.

xsd

Homepage:
Spack package:
Versions:
4.0.0
Build Dependencies:
xerces-c, libtool
Link Dependencies:
xerces-c
Description:
CodeSynthesis XSD is an open-source, cross-platform W3C XML Schema to C++ data binding compiler. It support in-memory and event-driven XML processing models and is available for a wide range of C++ compilers and platforms.

xsdk

Homepage:
Spack package:
Versions:
develop, 0.7.0, 0.6.0, 0.5.0, 0.4.0, 0.3.0
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hypre, mfem, superlu-dist, trilinos, datatransferkit, petsc, dealii, pflotran, alquimia, sundials, plasma, magma, amrex, slepc, omega-h, strumpack, pumi, tasmanian, arborx, phist, ginkgo, py-libensemble, py-petsc4py, precice, butterflypack, heffte, slate
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, hypre, mfem, superlu-dist, trilinos, datatransferkit, petsc, dealii, pflotran, alquimia, sundials, plasma, magma, amrex, slepc, omega-h, strumpack, pumi, tasmanian, arborx, phist, ginkgo, py-libensemble, py-petsc4py, precice, butterflypack, heffte, slate
Description:
Xsdk is a suite of Department of Energy (DOE) packages for numerical simulation. This is a Spack bundle package that installs the xSDK packages

xsdk-examples

Homepage:
Spack package:
Versions:
develop, 0.3.0, 0.2.0, 0.1.0
Build Dependencies:
cuda, cmake, xsdk, mpi
Link Dependencies:
cuda, xsdk, mpi
Description:
xSDK Examples show usage of libraries in the xSDK package.

xset

Homepage:
Spack package:
Versions:
1.2.3
Build Dependencies:
gnuconfig, libxmu, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, xproto
Description:
User preference utility for X.

xsetmode

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
gnuconfig, libxi, libx11, pkgconfig, util-macros
Link Dependencies:
libxi, libx11
Description:
Set the mode for an X Input device.

xsetpointer

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
gnuconfig, inputproto, pkgconfig, util-macros
Link Dependencies:
libxi, libx11, inputproto
Description:
Set an X Input device as the main pointer.

xsetroot

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
gnuconfig, libxmu, libx11, libxcursor, xbitmaps, xproto, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, libxcursor, xbitmaps, xproto
Description:
xsetroot - root window parameter setting utility for X.

xsimd

Homepage:
Spack package:
Versions:
develop, 8.0.5, 7.5.0, 7.4.10, 7.4.9, 7.2.3, 4.0.0, 3.1.0
Build Dependencies:
cmake
Test Dependencies:
googletest
Description:
C++ wrappers for SIMD intrinsics

xsm

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libx11, libxt, libice, libsm, libxaw, pkgconfig, util-macros
Link Dependencies:
libx11, libxt, libice, libsm, libxaw
Description:
X Session Manager.

xstdcmap

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxmu, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxmu, libx11, xproto
Description:
The xstdcmap utility can be used to selectively define standard colormap properties. It is intended to be run from a user's X startup script to create standard colormap definitions in order to facilitate sharing of scarce colormap resources among clients using PseudoColor visuals.

xtensor

Homepage:
Spack package:
Versions:
develop, 0.24.1, 0.23.10, 0.23.4, 0.23.2, 0.20.7, 0.15.1, 0.13.1
Build Dependencies:
cmake, xtl, xsimd, intel-tbb
Link Dependencies:
xtl, xsimd, intel-tbb
Description:
Multi-dimensional arrays with broadcasting and lazy computing

xtensor-python

Homepage:
Spack package:
Versions:
develop, 0.23.1, 0.17.0
Build Dependencies:
cmake, xtensor, xtl, py-pybind11, py-numpy, python
Link Dependencies:
xtensor, xtl, py-pybind11, py-numpy, python
Run Dependencies:
python
Description:
Python bindings for the xtensor C++ multi-dimensional array library

xterm

Homepage:
Spack package:
Versions:
353, 350, 340, 330, 327
Build Dependencies:
gnuconfig, libxft, fontconfig, libxaw, libxmu, libxt, libx11, libxinerama, libxpm, libice, freetype, libxrender, libxext, libsm, libxcb, libxau, bzip2, pkgconfig
Link Dependencies:
libxft, fontconfig, libxaw, libxmu, libxt, libx11, libxinerama, libxpm, libice, freetype, libxrender, libxext, libsm, libxcb, libxau, bzip2, termcap
Description:
The xterm program is a terminal emulator for the X Window System. It provides DEC VT102 and Tektronix 4014 compatible terminals for programs that can't use the window system directly.

xtl

Homepage:
Spack package:
Versions:
develop, 0.7.4, 0.7.2, 0.6.4, 0.4.0, 0.3.4, 0.3.3
Build Dependencies:
cmake
Description:
QuantStack tools library

xtrans

Homepage:
Spack package:
Versions:
1.3.5
Build Dependencies:
gnuconfig, pkgconfig, util-macros
Description:
xtrans is a library of code that is shared among various X packages to handle network protocol transport in a modular fashion, allowing a single place to add new transport types. It is used by the X server, libX11, libICE, the X font server, and related components.

xtrap

Homepage:
Spack package:
Versions:
1.0.2
Build Dependencies:
gnuconfig, libx11, libxtrap, pkgconfig, util-macros
Link Dependencies:
libx11, libxtrap
Description:
XTrap sample clients.

xts

Homepage:
Spack package:
Versions:
0.99.1
Build Dependencies:
gnuconfig, inputproto, recordproto, fixesproto, xtrans, bdftopcf, mkfontdir, perl, xset, xdpyinfo
Link Dependencies:
libx11, libxext, libxi, libxtst, libxau, libxt, libxmu, libxaw, inputproto, recordproto, fixesproto, xtrans
Description:
This is a revamped version of X Test Suite (XTS) which removes some of the ugliness of building and running the tests.

xvidtune

Homepage:
Spack package:
Versions:
1.0.3
Build Dependencies:
gnuconfig, libxxf86vm, libxt, libxaw, libxmu, libx11, pkgconfig, util-macros
Link Dependencies:
libxxf86vm, libxt, libxaw, libxmu, libx11
Description:
xvidtune is a client interface to the X server video mode extension (XFree86-VidModeExtension).

xvinfo

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libxv, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxv, libx11, xproto
Description:
xvinfo prints out the capabilities of any video adaptors associated with the display that are accessible through the X-Video extension.

xwd

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
gnuconfig, libx11, libxkbfile, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxkbfile, xproto
Description:
xwd - dump an image of an X window.

xwidgets

Homepage:
Spack package:
Versions:
master, 0.25.0
Build Dependencies:
cmake, xtl, xproperty, xeus, nlohmann-json
Link Dependencies:
xtl, xproperty, xeus, nlohmann-json
Description:
A C++ backend for Jupyter interactive widgets

xwininfo

Homepage:
Spack package:
Versions:
1.1.3
Build Dependencies:
gnuconfig, libxcb, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libxcb, libx11, xproto
Description:
xwininfo prints information about windows on an X server. Various information is displayed depending on which options are selected.

xwud

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
gnuconfig, libx11, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, xproto
Description:
xwud allows X users to display in a window an image saved in a specially formatted dump file, such as produced by xwd.

xxd-standalone

Homepage:
Spack package:
Versions:
8.2.1201
Description:
xxd creates a hex dump of a given file or standard input. It is bundled with vim, but as xxd is used in build scripts, it makes sense to have it available as a standalone package.

xxhash

Homepage:
Spack package:
Versions:
0.8.1, 0.8.0, 0.7.4, 0.6.5, 0.6.4, 0.6.3, 0.6.2, 0.6.1, 0.6.0, 0.5.1, 0.5.0
Description:
xxHash is an Extremely fast Hash algorithm, running at RAM speed limits. It successfully completes the SMHasher test suite which evaluates collision, dispersion and randomness qualities of hash functions. Code is highly portable, and hashes are identical on all platforms (little / big endian).

xyce

Homepage:
Spack package:
Versions:
7.4.0, 7.3.0, 7.2.0, github.master
Build Dependencies:
cmake, flex, bison, mpi, adms, python, py-numba, py-pycompadre, py-pybind11, trilinos
Link Dependencies:
flex, bison, mpi, python, py-numba, py-pycompadre, py-pybind11, trilinos
Run Dependencies:
adms, python, py-numba, py-pycompadre, py-pip
Description:
Xyce (rhymes with 'spice') is an open source, SPICE-compatible, high- performance analog circuit simulator, capable of solving extremely large circuit problems by supporting large-scale parallel computing platforms. Xyce also supports serial execution on all common desktop platforms, and small-scale parallel runs on Unix-like systems. In addition to analog electronic simulation, Xyce has also been used to investigate more general network systems, such as neural networks and power grids.

xz

Homepage:
Spack package:
Versions:
5.2.5, 5.2.4, 5.2.3, 5.2.2, 5.2.0
Build Dependencies:
gnuconfig
Description:
XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.

yajl

Homepage:
Spack package:
Versions:
develop, 2.1.0
Build Dependencies:
cmake
Description:
Yet Another JSON Library (YAJL)

yaksa

Homepage:
Spack package:
Versions:
0.2
Build Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda, gnuconfig, autoconf, automake, libtool, m4, python
Link Dependencies:
llvm-amdgpu, hsa-rocr-dev, hip, cuda
Description:
Yaksa is a high-performance datatype engine for expressing, managing and manipulating data present in noncontiguous memory regions. It provides portable abstractions for structured noncontiguous data layouts that are much more comprehensive compared with traditional I/O vectors. Yaksa imitates parts of the MPI Datatype system, but adds additional functionality that would allow it to be used independent of MPI. It provides routines for packing/unpacking, creating I/O vectors (array of contiguous segments) and flattening/unflattening datatypes into process- portable formats. Yaksa's backend includes support for CPUs as well as different GPUs.

yambo

Homepage:
Spack package:
Versions:
4.2.2, 4.2.1, 4.2.0
Build Dependencies:
gnuconfig, blas, lapack, mpi, netcdf-c, hdf5, fftw, scalapack, netcdf-fortran, libxc
Link Dependencies:
blas, lapack, mpi, netcdf-c, hdf5, fftw, scalapack, netcdf-fortran, libxc
Description:
Yambo is a FORTRAN/C code for Many-Body calculations in solid state and molecular physics. Yambo relies on the Kohn-Sham wavefunctions generated by two DFT public codes: abinit, and PWscf. The code was originally developed in the Condensed Matter Theoretical Group of the Physics Department at the University of Rome "Tor Vergata" by Andrea Marini. Previous to its release under the GPL license, yambo was known as SELF.

yaml-cpp

Homepage:
Spack package:
Versions:
develop, 0.7.0, 0.6.3, 0.6.2, 0.5.3, 0.3.0
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
A YAML parser and emitter in C++

yara

Homepage:
Spack package:
Versions:
3.9.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Description:
YARA is a tool aimed at (but not limited to) helping malware researchers to identify and classify malware samples

yarn

Homepage:
Spack package:
Versions:
1.22.4, 1.22.2, 1.22.1, 1.22.0, 1.21.1
Run Dependencies:
node-js
Description:
Fast, reliable, and secure dependency management.

yasm

Homepage:
Spack package:
Versions:
develop, 1.3.0
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4
Link Dependencies:
autoconf, automake, libtool, m4
Description:
Yasm is a complete rewrite of the NASM-2.11.06 assembler. It supports the x86 and AMD64 instruction sets, accepts NASM and GAS assembler syntaxes and outputs binary, ELF32 and ELF64 object formats.

ycsb

Homepage:
Spack package:
Versions:
0.17.0, 0.16.0, 0.15.0, 0.14.0, 0.13.0
Build Dependencies:
java, maven, mongodb-async-driver
Run Dependencies:
java
Description:
Yahoo! Cloud Serving Benchmark.

yoda

Homepage:
Spack package:
Versions:
1.9.5, 1.9.0, 1.8.5, 1.8.4, 1.8.3, 1.8.2, 1.8.1, 1.8.0, 1.7.7, 1.7.6, 1.7.5, 1.7.4, 1.7.3, 1.7.2, 1.7.1, 1.7.0, 1.6.7, 1.6.6, 1.6.5, 1.6.4, 1.6.3, 1.6.2, 1.6.1, 1.6.0, 1.5.9, 1.5.8, 1.5.7, 1.5.6, 1.5.5, 1.5.4, 1.5.3, 1.5.2, 1.5.1, 1.5.0, 1.4.0, 1.3.1, 1.3.0, 1.2.1, 1.2.0, 1.1.0, 1.0.7, 1.0.6, 1.0.5, 1.0.4, 1.0.3
Build Dependencies:
gnuconfig, python, py-future, zlib, boost, py-cython, py-matplotlib, root
Link Dependencies:
zlib, root
Run Dependencies:
python, py-future, boost, py-matplotlib, root
Description:
YODA - Yet more Objects for Data Analysis

yorick

Homepage:
Spack package:
Versions:
master, 2.2.04, f90-plugin
Build Dependencies:
libx11
Link Dependencies:
libx11
Description:
Yorick is an interpreted programming language for scientific simulations or calculations, postprocessing or steering large simulation codes, interactive scientific graphics, and reading, writing, or translating files of numbers. Yorick includes an interactive graphics package, and a binary file package capable of translating to and from the raw numeric formats of all modern computers. Yorick is written in ANSI C and runs on most operating systems (*nix systems, MacOS X, Windows).

z-checker

Homepage:
Spack package:
Versions:
0.7.0, 0.6.0, 0.5.0
Build Dependencies:
gnuconfig, mpi
Link Dependencies:
mpi
Description:
a library to perform the compression assessment for lossy compressors

z3

Homepage:
Spack package:
Versions:
4.8.16, 4.8.15, 4.8.14, 4.8.9, 4.8.8, 4.8.7, 4.5.0
Build Dependencies:
cmake, python, gmp
Link Dependencies:
gmp
Run Dependencies:
python, py-setuptools
Description:
Z3 is a theorem prover from Microsoft Research. It is licensed under the MIT license.

zabbix

Homepage:
Spack package:
Versions:
5.0.3, 4.0.24, 4.0.23
Build Dependencies:
gnuconfig, autoconf, automake, libtool, m4, mysql, libevent, pcre, go
Link Dependencies:
mysql, libevent, pcre, go
Description:
Real-time monitoring of IT components and services, such as networks, servers, VMs, applications and the cloud.

zfp

Homepage:
Spack package:
Versions:
develop, 0.5.5, 0.5.4, 0.5.3, 0.5.2, 0.5.1
Build Dependencies:
cuda, cmake, python, py-numpy, py-cython
Link Dependencies:
cuda
Run Dependencies:
cuda, python, py-numpy
Test Dependencies:
cuda, python, py-numpy
Description:
zfp is a compressed number format for multidimensional floating-point and integer arrays. zfp provides compressed-array classes that support high throughput read and write random access to individual array elements. zfp also supports serial and parallel (OpenMP and CUDA) compression of whole arrays.

zfs

Homepage:
Spack package:
Versions:
0.8.3, 0.8.2, 0.8.1, 0.8.0
Build Dependencies:
gnuconfig, uuid, libtirpc, util-linux
Link Dependencies:
uuid, libtirpc, util-linux
Description:
OpenZFS is an advanced file system and volume manager which was originally developed for Solaris and is now maintained by the OpenZFS community. This repository contains the code for running OpenZFS on Linux and FreeBSD.

zig

Homepage:
Spack package:
Versions:
0.7.1
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
A general-purpose programming language and toolchain for maintaining robust, optimal, and reusable software.

zip

Homepage:
Spack package:
Versions:
3.0
Build Dependencies:
bzip2
Link Dependencies:
bzip2
Description:
Zip is a compression and file packaging/archive utility.

zipkin

Homepage:
Spack package:
Versions:
2.21.5, 2.21.4, 2.21.3
Build Dependencies:
java, maven
Run Dependencies:
java
Description:
Zipkin is a distributed tracing system. It helps gather timing data needed to troubleshoot latency problems in service architectures. Features include both the collection and lookup of this data.

zlib

Homepage:
Spack package:
Versions:
1.2.12, 1.2.11, 1.2.8, 1.2.3
Description:
A free, general-purpose, legally unencumbered lossless data-compression library.

zlib-ng

Homepage:
Spack package:
Versions:
2.0.0
Build Dependencies:
cmake
Description:
zlib replacement with optimizations for next generation systems.

zoltan

Homepage:
Spack package:
Versions:
3.83
Build Dependencies:
gnuconfig, mpi, parmetis, metis, perl, autoconf, automake, m4
Link Dependencies:
mpi, parmetis, metis
Description:
The Zoltan library is a toolkit of parallel combinatorial algorithms for parallel, unstructured, and/or adaptive scientific applications. Zoltan's largest component is a suite of dynamic load-balancing and partitioning algorithms that increase applications' parallel performance by reducing idle time. Zoltan also has graph coloring and graph ordering algorithms, which are useful in task schedulers and parallel preconditioners.

zookeeper

Homepage:
Spack package:
Versions:
3.4.11
Description:
Apache ZooKeeper is an effort to develop and maintain an open-source server which enables highly reliable distributed coordination.

zookeeper-benchmark

Homepage:
Spack package:
Versions:
master
Build Dependencies:
java, maven, zookeeper
Run Dependencies:
java, zookeeper
Description:
It is designed to measure the per-request latency of a ZooKeeper ensemble for a predetermined length of time

zpares

Homepage:
Spack package:
Versions:
0.9.6a
Build Dependencies:
mumps, lapack, blas, mpi
Link Dependencies:
mumps, lapack, blas, mpi
Description:
z-Pares is designed to compute a few eigenvalues and eigenvectors of sparse matrices.

zsh

Homepage:
Spack package:
Versions:
5.8, 5.7.1, 5.6.2, 5.4.2, 5.3.1, 5.1.1
Build Dependencies:
gnuconfig, pcre, ncurses
Link Dependencies:
pcre, ncurses
Description:
Zsh is a shell designed for interactive use, although it is also a powerful scripting language. Many of the useful features of bash, ksh, and tcsh were incorporated into zsh; many original features were added.

zstd

Homepage:
Spack package:
Versions:
develop, 1.5.2, 1.5.0, 1.4.9, 1.4.8, 1.4.7, 1.4.5, 1.4.4, 1.4.3, 1.4.2, 1.4.0, 1.3.8, 1.3.0, 1.1.2
Build Dependencies:
zlib, lz4, xz
Link Dependencies:
zlib, lz4, xz
Description:
Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.

zstr

Homepage:
Spack package:
Versions:
1.0.4, 1.0.3, 1.0.2, 1.0.1, 1.0.0
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
This C++ header-only library enables the use of C++ standard iostreams to access ZLib-compressed streams.

zziplib

Homepage:
Spack package:
Versions:
0.13.72, 0.13.69
Build Dependencies:
gnuconfig, python, cmake, zlib, coreutils, pkgconfig
Link Dependencies:
zlib
Description:
The zziplib provides read access to zipped files in a zip-archive, using compression based solely on free algorithms provided by zlib. It also provides a functionality to overlay the archive filesystem with the filesystem of the operating system environment.